Pierrick Roger
| Snapshot Date: 2025-03-31 13:00 -0400 (Mon, 31 Mar 2025) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: RELEASE_3_20 |
| git_last_commit: e6b963e |
| git_last_commit_date: 2024-10-29 11:04:35 -0400 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2025-04-02 19:28 -0400 (Wed, 02 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4764 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.3 (2025-02-28 ucrt) -- "Trophy Case" | 4495 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4522 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4449 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4426 |
| 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 202/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.12.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | 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. |
| Package: biodbChebi |
| Version: 1.12.0 |
| Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings biodbChebi_1.12.0.tar.gz |
| StartedAt: 2025-03-31 20:14:20 -0400 (Mon, 31 Mar 2025) |
| EndedAt: 2025-03-31 20:15:26 -0400 (Mon, 31 Mar 2025) |
| EllapsedTime: 66.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings biodbChebi_1.12.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/biodbChebi.Rcheck’
* using R version 4.4.3 (2025-02-28)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.2 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.12.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’ * installing *source* package ‘biodbChebi’ ... ** 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 4.4.3 (2025-02-28) -- "Trophy Case"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-03-31 20:15:01.770][biodb::testContext]
biodb.INFO [2025-03-31 20:15:01.772][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-31 20:15:01.773][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-31 20:15:01.774][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-31 20:15:01.775][biodb::testContext]
biodb.INFO [2025-03-31 20:15:01.782][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-31 20:15:01.784][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-31 20:15:01.791][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:01.792][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-31 20:15:01.794][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-31 20:15:01.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.798][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-31 20:15:01.818][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-31 20:15:01.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.823][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-31 20:15:01.824][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-31 20:15:01.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.828][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-31 20:15:01.829][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-31 20:15:01.830][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-31 20:15:01.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.833][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-31 20:15:01.835][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-31 20:15:01.836][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-31 20:15:01.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.839][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-31 20:15:01.840][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-31 20:15:01.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.844][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-31 20:15:01.845][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-31 20:15:01.846][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-31 20:15:01.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.850][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-31 20:15:01.851][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-31 20:15:01.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.854][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[2025-03-31 20:15:01.855][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-31 20:15:01.856][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-31 20:15:01.857][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-31 20:15:01.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.861][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-31 20:15:01.862][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-31 20:15:01.863][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-31 20:15:01.864][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-31 20:15:01.865][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-31 20:15:01.867][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-31 20:15:01.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.870][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-31 20:15:01.871][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-31 20:15:01.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.875][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-31 20:15:01.876][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-31 20:15:01.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.880][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-31 20:15:01.881][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-31 20:15:01.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.885][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-31 20:15:01.886][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-31 20:15:01.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.890][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-31 20:15:01.891][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-31 20:15:01.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.895][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-31 20:15:01.896][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-31 20:15:01.900][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-31 20:15:01.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.904][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-31 20:15:01.905][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-31 20:15:01.906][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-31 20:15:01.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:01.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:01.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:01.913][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-31 20:15:01.950][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:01.976][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-31 20:15:01.977][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:01.978][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:01.979][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:01.980][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:01.981][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:01.982][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:01.983][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-31 20:15:01.984][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:01.985][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:01.986][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-31 20:15:01.987][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:01.988][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:01.989][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:01.989][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:01.989][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:01.989][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:01.989][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-31 20:15:01.989][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-31 20:15:01.990][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:01.991][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:01.992][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:01.993][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:01.994][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:01.995][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:01.996][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:01.997][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:01.998][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:01.998][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:01.999][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.000][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.001][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-31 20:15:02.003][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.004][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-31 20:15:02.005][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.006][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:02.007][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.008][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.009][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.010][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.011][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-31 20:15:02.012][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:02.013][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.013][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-31 20:15:02.014][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:02.015][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.016][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.017][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:02.017][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:02.017][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:02.017][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-31 20:15:02.017][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-31 20:15:02.018][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:02.019][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:02.020][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:02.021][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:02.022][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:02.023][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:02.024][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.025][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.025][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:02.026][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:02.027][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.028][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.029][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-31 20:15:02.036][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.038][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-31 20:15:02.039][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.040][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:02.041][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.042][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.043][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.044][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.045][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-31 20:15:02.046][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:02.047][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.048][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-31 20:15:02.049][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:02.050][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.051][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.053][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.054][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:02.055][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:02.056][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:02.057][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:02.058][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:02.058][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:02.060][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.061][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.062][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:02.063][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:02.064][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.065][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.066][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-31 20:15:02.068][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.069][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-31 20:15:02.070][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.071][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:02.072][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.073][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.074][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.075][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.076][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-31 20:15:02.077][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:02.078][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.079][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-31 20:15:02.080][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:02.081][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.082][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.083][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.084][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:02.085][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:02.086][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:02.087][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:02.088][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:02.089][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:02.090][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.091][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.092][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:02.093][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:02.094][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.095][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:02.100][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:02.101][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.125][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[2025-03-31 20:15:02.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.156][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[2025-03-31 20:15:02.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.179][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-31 20:15:02.185][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-31 20:15:02.186][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-31 20:15:02.187][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-31 20:15:02.189][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-31 20:15:02.190][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-31 20:15:02.192][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-31 20:15:02.193][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-31 20:15:02.195][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-31 20:15:02.196][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-31 20:15:02.197][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-31 20:15:02.199][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-31 20:15:02.200][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-31 20:15:02.202][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-31 20:15:02.203][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-31 20:15:02.204][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-31 20:15:02.206][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-31 20:15:02.207][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-31 20:15:02.209][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-31 20:15:02.210][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-31 20:15:02.212][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-31 20:15:02.213][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-31 20:15:02.214][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-31 20:15:02.216][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-31 20:15:02.217][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-31 20:15:02.219][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-31 20:15:02.220][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-31 20:15:02.221][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-31 20:15:02.223][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-31 20:15:02.224][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-31 20:15:02.226][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-31 20:15:02.227][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-31 20:15:02.228][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-31 20:15:02.230][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-31 20:15:02.244][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-31 20:15:02.246][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-31 20:15:02.247][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-31 20:15:02.249][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-31 20:15:02.250][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-31 20:15:02.251][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-31 20:15:02.253][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-31 20:15:02.254][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-31 20:15:02.256][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-31 20:15:02.257][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-31 20:15:02.259][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-31 20:15:02.260][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-31 20:15:02.262][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-31 20:15:02.263][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-31 20:15:02.264][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-31 20:15:02.266][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-31 20:15:02.267][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-31 20:15:02.269][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-31 20:15:02.270][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-31 20:15:02.272][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-31 20:15:02.273][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-31 20:15:02.274][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-31 20:15:02.276][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-31 20:15:02.277][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-31 20:15:02.279][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-31 20:15:02.280][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-31 20:15:02.282][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-31 20:15:02.283][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-31 20:15:02.284][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-31 20:15:02.286][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-31 20:15:02.287][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-31 20:15:02.289][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-31 20:15:02.290][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-31 20:15:02.291][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-31 20:15:02.293][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-31 20:15:02.294][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-31 20:15:02.296][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-31 20:15:02.297][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-31 20:15:02.298][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-31 20:15:02.300][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-31 20:15:02.301][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-31 20:15:02.303][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-31 20:15:02.304][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-31 20:15:02.305][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-31 20:15:02.307][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-31 20:15:02.308][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-31 20:15:02.309][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-31 20:15:02.311][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-31 20:15:02.312][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-31 20:15:02.318][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-31 20:15:02.320][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-31 20:15:02.323][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:02.323][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.325][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.326][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[2025-03-31 20:15:02.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.347][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[2025-03-31 20:15:02.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.352][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[2025-03-31 20:15:02.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.369][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[2025-03-31 20:15:02.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.375][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.DEBUG[2025-03-31 20:15:02.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.387][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.DEBUG[2025-03-31 20:15:02.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.392][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[2025-03-31 20:15:02.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.398][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[2025-03-31 20:15:02.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.404][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[2025-03-31 20:15:02.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:02.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:02.428][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-31 20:15:02.438][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-31 20:15:02.440][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.441][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.442][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.443][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:02.444][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.444][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.445][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.446][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-31 20:15:02.447][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-31 20:15:02.448][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:02.449][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.450][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-31 20:15:02.451][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:02.452][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-31 20:15:02.452][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-31 20:15:02.452][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-31 20:15:02.452][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-31 20:15:02.452][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-31 20:15:02.452][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-31 20:15:02.452][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-31 20:15:02.452][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-31 20:15:02.452][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-31 20:15:02.452][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-31 20:15:02.452][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-31 20:15:02.453][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:02.454][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:02.454][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:02.454][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:02.455][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-31 20:15:02.456][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:02.457][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:02.458][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:02.459][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:02.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:02.460][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:02.461][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-31 20:15:02.461][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-31 20:15:02.462][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:02.463][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:02.464][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:02.465][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-31 20:15:02.465][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-31 20:15:02.471][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-31 20:15:02.473][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-31 20:15:02.474][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-31 20:15:02.475][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-31 20:15:02.477][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-31 20:15:02.478][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-31 20:15:02.505][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-31 20:15:02.507][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-31 20:15:02.511][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-31 20:15:02.515][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-31 20:15:02.519][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-31 20:15:02.520][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-31 20:15:02.521][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-31 20:15:02.522][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-31 20:15:02.531][biodb::testThat]
biodb.INFO [2025-03-31 20:15:02.532][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-03-31 20:15:02.533][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:02.534][biodb::testThat]
biodb.TRACE[2025-03-31 20:15:02.538][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-03-31 20:15:02.539][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:02.543][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:02.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:02.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:02.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:02.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:02.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:02.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:02.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:02.577][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.578][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.580][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.597][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:02.598][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:02.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.600][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.625][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:02.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:02.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.630][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:02.631][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:02.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.632][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:02.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:02.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.638][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:02.639][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:02.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.640][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:02.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:02.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.645][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:02.646][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:02.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.648][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:02.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:02.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.653][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:02.654][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:02.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.656][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.657][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:02.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:02.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.661][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:02.662][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:02.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.664][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.665][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:02.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:02.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.669][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:02.670][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:02.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.672][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:02.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:02.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.677][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:02.678][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:02.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.680][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.681][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:02.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:02.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.685][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:02.686][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:02.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.688][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.689][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:02.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:02.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.693][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:02.694][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:02.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.696][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.697][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:02.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:02.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:02.781][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-03-31 20:15:02.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:02.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:02.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:02.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:02.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:02.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:02.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:02.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:02.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:02.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:02.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:02.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:02.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.828][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-31 20:15:02.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-31 20:15:02.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.832][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-31 20:15:02.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-31 20:15:02.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.835][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-31 20:15:02.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-31 20:15:02.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.839][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-31 20:15:02.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-31 20:15:02.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.933][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.934][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.936][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:02.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:02.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.986][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.987][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.989][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:02.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:02.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:02.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.001][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.005][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.012][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.013][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.015][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:03.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:03.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.030][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:03.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:03.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.034][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:03.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:03.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.038][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:03.039][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:03.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.040][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.041][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:03.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:03.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.063][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.064][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.066][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.089][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.090][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.091][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.103][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:03.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:03.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.107][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:03.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:03.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.111][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:03.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:03.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.114][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:03.115][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:03.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.117][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.118][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:03.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:03.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.128][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.133][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.137][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.140][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.141][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.143][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.144][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.155][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.159][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.162][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.166][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.167][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.169][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.170][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.180][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:03.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:03.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.189][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:03.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:03.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.193][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:03.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:03.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.196][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:03.197][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:03.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.199][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.200][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:03.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:03.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.222][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.223][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.225][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.247][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.248][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.250][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.262][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:03.263][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:03.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.265][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.269][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:03.270][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:03.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.271][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.275][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:03.276][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:03.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.278][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.282][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.283][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.285][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.289][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.290][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.292][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.296][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.297][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.298][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.303][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.304][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.305][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.310][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.311][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.312][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.316][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.317][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.319][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.323][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.324][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.326][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.330][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:03.331][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:03.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.332][ef$get] fields variable is a list.
biodb.INFO [2025-03-31 20:15:03.339][biodb::testThat]
biodb.INFO [2025-03-31 20:15:03.340][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-31 20:15:03.341][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:03.341][biodb::testThat]
biodb.DEBUG[2025-03-31 20:15:03.354][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-03-31 20:15:03.361][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:03.366][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-03-31 20:15:03.367][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:03.368][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-03-31 20:15:03.369][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:03.397][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:03.399][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:03.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:03.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:03.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:03.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:03.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:03.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:03.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:03.411][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:03.412][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:03.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.414][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:03.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:03.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.435][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:03.436][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:03.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.438][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.439][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:03.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:03.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.443][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:03.444][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:03.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.446][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.447][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:03.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:03.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.451][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.452][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.454][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.459][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.460][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.462][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.467][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.468][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.470][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.471][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:03.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.475][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:03.476][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.477][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.479][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:03.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.482][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.483][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.485][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.490][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.491][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.493][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.494][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.498][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:03.499][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.501][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.502][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:03.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:03.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.506][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:03.507][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:03.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.508][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.510][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:03.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:03.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:03.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:03.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:03.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:03.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:03.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:03.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:03.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:03.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:03.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:03.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:03.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:03.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:03.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:03.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:03.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:03.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:03.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:03.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:03.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:03.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:03.551][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-03-31 20:15:03.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-31 20:15:03.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-31 20:15:03.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-31 20:15:03.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-31 20:15:03.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-31 20:15:03.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-31 20:15:03.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-31 20:15:03.570][biodb::testThat]
biodb.INFO [2025-03-31 20:15:03.571][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-31 20:15:03.571][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:03.572][biodb::testThat]
biodb.TRACE[2025-03-31 20:15:03.575][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.576][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.578][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:03.579][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-03-31 20:15:03.608][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.612][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.616][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:03.623][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-03-31 20:15:03.627][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-31 20:15:03.647][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:03.662][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-31 20:15:03.663][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:03.664][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-31 20:15:03.686][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[2025-03-31 20:15:03.695][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:03.696][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-31 20:15:03.698][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:03.699][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-31 20:15:03.701][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-03-31 20:15:03.711][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.712][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:03.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.714][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.715][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.716][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.717][ef$get] fields variable is a list.
biodb.INFO [2025-03-31 20:15:03.721][biodb::testThat]
biodb.INFO [2025-03-31 20:15:03.722][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-03-31 20:15:03.723][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:03.724][biodb::testThat]
biodb.TRACE[2025-03-31 20:15:03.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.750][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:03.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:03.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:03.814][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[2025-03-31 20:15:03.817][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:03.819][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-31 20:15:03.820][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:03.821][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-03-31 20:15:03.835][biodb::testThat]
biodb.INFO [2025-03-31 20:15:03.836][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-03-31 20:15:03.837][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:03.838][biodb::testThat]
biodb.TRACE[2025-03-31 20:15:03.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.864][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.879][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-31 20:15:03.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-31 20:15:03.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.882][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-31 20:15:03.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-31 20:15:03.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.886][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-31 20:15:03.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-31 20:15:03.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.890][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-31 20:15:03.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-31 20:15:03.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:03.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:03.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:03.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:03.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.933][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-31 20:15:03.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-31 20:15:03.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.936][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-31 20:15:03.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-31 20:15:03.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.940][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-31 20:15:03.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-31 20:15:03.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:03.944][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-31 20:15:03.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-31 20:15:03.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:03.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-31 20:15:03.953][biodb::testThat]
biodb.INFO [2025-03-31 20:15:03.954][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-31 20:15:03.955][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:03.956][biodb::testThat]
biodb.INFO [2025-03-31 20:15:03.963][biodb::testThat]
biodb.INFO [2025-03-31 20:15:03.964][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-31 20:15:03.965][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:03.966][biodb::testThat]
biodb.INFO [2025-03-31 20:15:03.974][biodb::testThat]
biodb.INFO [2025-03-31 20:15:03.975][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-31 20:15:03.976][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:03.976][biodb::testThat]
biodb.DEBUG[2025-03-31 20:15:03.980][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-03-31 20:15:04.528][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-03-31 20:15:05.516][biodb::testThat]
biodb.INFO [2025-03-31 20:15:05.517][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-31 20:15:05.518][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:05.519][biodb::testThat]
biodb.DEBUG[2025-03-31 20:15:06.116][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[2025-03-31 20:15:06.477][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:06.479][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:06.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.484][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.486][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:06.488][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:06.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.493][ef$get] fields variable is a list.
biodb.INFO [2025-03-31 20:15:06.497][biodb::testThat]
biodb.INFO [2025-03-31 20:15:06.499][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-03-31 20:15:06.501][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:06.503][biodb::testThat]
biodb.TRACE[2025-03-31 20:15:06.524][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:06.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:06.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:06.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:06.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.536][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:06.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:06.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:06.656][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[2025-03-31 20:15:06.660][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:06.662][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-31 20:15:06.663][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:06.665][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-31 20:15:06.734][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[2025-03-31 20:15:06.737][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:06.739][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-31 20:15:06.740][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:06.741][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-03-31 20:15:06.756][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-31 20:15:06.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-31 20:15:06.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:06.793][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[2025-03-31 20:15:06.796][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:06.798][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-31 20:15:06.799][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:06.807][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-31 20:15:06.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:06.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:06.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:06.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:06.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:06.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:06.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:06.831][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-03-31 20:15:06.875][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:06.877][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-03-31 20:15:06.882][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:06.892][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2025-03-31 20:15:06.893][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:06.894][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:06.895][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:06.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:06.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:06.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:06.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:06.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:06.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:06.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:06.908][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:06.909][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:06.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.911][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:06.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:06.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.916][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:06.917][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:06.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.919][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.920][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:06.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:06.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.924][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:06.925][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:06.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.927][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:06.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:06.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.932][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:06.933][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:06.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.935][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:06.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:06.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.940][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:06.941][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:06.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.942][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:06.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:06.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.947][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:06.948][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:06.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.950][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.951][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:06.952][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.954][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.955][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:06.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:06.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.959][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:06.960][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:06.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.962][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:06.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:06.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.967][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:06.968][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:06.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.969][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.971][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:06.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:06.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.974][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:06.975][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:06.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.977][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.978][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:06.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:06.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.982][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:06.983][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:06.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.985][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.986][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:06.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:06.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:06.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:06.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:06.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:06.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:06.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.032][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-03-31 20:15:07.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.053][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-31 20:15:07.056][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:07.057][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-31 20:15:07.059][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:07.066][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-31 20:15:07.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.090][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[2025-03-31 20:15:07.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.110][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[2025-03-31 20:15:07.112][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-03-31 20:15:07.112][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:07.114][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-03-31 20:15:07.119][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:07.125][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2025-03-31 20:15:07.126][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:07.127][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:07.128][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:07.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:07.140][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.141][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.143][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.148][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:07.149][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:07.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.151][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.152][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:07.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:07.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.156][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:07.157][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:07.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.159][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.160][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:07.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:07.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.164][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:07.165][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:07.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.167][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.168][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:07.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:07.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.172][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.173][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.179][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.184][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.185][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.187][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.188][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:07.189][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.191][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.192][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:07.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.196][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.197][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.199][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.204][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:07.205][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:07.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.206][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:07.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:07.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.212][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:07.213][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:07.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.214][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.215][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:07.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:07.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.219][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:07.220][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:07.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.222][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.223][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:07.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:07.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.264][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-03-31 20:15:07.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.292][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[2025-03-31 20:15:07.295][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:07.296][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-31 20:15:07.297][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:07.299][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-31 20:15:07.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:07.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:07.332][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-03-31 20:15:07.333][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:07.334][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-03-31 20:15:07.335][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:07.346][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-03-31 20:15:07.347][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:07.349][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:07.350][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:07.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:07.367][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.368][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.369][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.374][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:07.375][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:07.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.377][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.378][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:07.379][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:07.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.381][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.382][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:07.383][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:07.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.385][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.386][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.387][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.389][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.390][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.391][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.393][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.394][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:07.395][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.397][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.398][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.399][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.401][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.402][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:07.403][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:07.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.405][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:07.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:07.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.410][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:07.411][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:07.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.412][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.413][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:07.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:07.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.417][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:07.418][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:07.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.420][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.458][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-03-31 20:15:07.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.485][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:07.489][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-03-31 20:15:07.490][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:07.492][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-03-31 20:15:07.494][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:07.503][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-03-31 20:15:07.504][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:07.506][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:07.507][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:07.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:07.520][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.521][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.523][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.528][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:07.529][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:07.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.531][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.532][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:07.537][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:07.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.540][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.541][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:07.542][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:07.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.544][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.545][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.546][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.548][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.549][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.550][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.552][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.553][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:07.554][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.556][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.557][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.558][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.560][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.561][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:07.562][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:07.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.563][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:07.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:07.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.569][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:07.570][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:07.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.572][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.573][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:07.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:07.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.576][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:07.577][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:07.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.579][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.617][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-03-31 20:15:07.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.646][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[2025-03-31 20:15:07.647][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-03-31 20:15:07.648][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:07.649][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-03-31 20:15:07.650][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:07.696][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-03-31 20:15:07.698][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:07.699][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:07.700][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:07.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:07.712][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.713][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.715][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.720][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:07.721][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:07.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.723][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.724][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:07.725][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:07.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.727][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.728][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:07.729][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:07.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.731][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.732][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.733][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.735][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.736][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.737][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.738][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.740][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:07.741][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.742][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.743][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.744][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.751][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.752][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:07.753][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:07.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.755][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:07.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:07.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.760][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:07.761][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:07.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.763][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.764][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:07.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:07.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.768][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:07.769][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:07.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.771][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.809][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-03-31 20:15:07.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:07.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:07.838][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-03-31 20:15:07.839][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:07.841][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-03-31 20:15:07.842][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:07.866][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-03-31 20:15:07.867][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:07.869][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:07.870][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:07.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:07.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:07.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:07.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:07.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:07.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:07.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:07.883][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.884][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.885][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.890][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:07.891][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:07.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.893][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.894][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:07.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:07.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.898][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:07.899][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:07.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.901][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:07.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:07.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.906][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:07.907][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:07.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.909][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:07.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:07.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.913][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.914][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.916][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:07.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.921][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.922][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.924][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.925][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:07.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.929][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:07.930][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.931][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.933][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:07.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:07.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.941][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.942][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.944][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:07.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.949][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:07.950][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:07.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.952][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.954][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:07.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:07.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.958][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:07.959][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:07.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.960][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.961][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:07.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:07.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.965][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:07.966][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:07.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.968][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.969][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:07.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:07.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:07.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:07.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:07.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:07.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:07.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.010][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-03-31 20:15:08.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:08.031][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-03-31 20:15:08.032][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:08.034][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-03-31 20:15:08.035][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:08.039][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-03-31 20:15:08.040][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:08.042][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:08.043][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:08.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:08.055][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.056][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.058][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.063][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.064][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.066][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.067][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.071][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.072][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.073][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.075][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.078][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.079][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.081][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.086][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.087][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.089][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.094][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.095][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.097][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.098][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.102][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.103][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.105][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.106][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.114][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.115][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.117][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.122][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.123][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.124][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.129][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.130][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.132][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.133][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.137][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.138][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.140][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.141][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.182][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-03-31 20:15:08.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:08.204][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-03-31 20:15:08.204][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:08.206][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-03-31 20:15:08.207][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:08.214][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-03-31 20:15:08.215][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:08.216][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:08.217][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:08.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:08.229][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.230][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.232][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.237][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.238][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.240][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.241][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.245][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.246][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.247][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.248][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.252][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.253][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.255][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.256][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.260][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.261][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.263][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.264][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.268][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.269][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.270][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.271][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.272][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.274][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.275][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.284][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.285][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.286][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.291][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.293][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.294][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.299][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.300][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.302][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.303][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.307][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.308][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.310][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.311][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.351][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-03-31 20:15:08.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:08.373][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-03-31 20:15:08.374][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:08.375][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-03-31 20:15:08.376][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:08.378][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-03-31 20:15:08.379][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:08.380][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:08.381][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:08.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:08.393][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.394][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.396][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.401][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.402][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.404][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.405][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.409][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.410][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.412][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.413][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.416][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.417][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.419][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.424][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.425][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.427][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.432][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.433][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.435][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.436][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.437][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.439][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.440][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.444][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.449][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.451][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.456][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.457][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.459][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.460][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.464][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.465][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.467][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.468][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.472][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.473][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.475][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.476][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.517][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-03-31 20:15:08.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:08.539][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-03-31 20:15:08.540][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:08.541][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-03-31 20:15:08.542][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:08.544][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-03-31 20:15:08.545][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:08.546][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:08.547][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:08.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:08.560][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.561][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.563][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.568][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.569][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.571][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.572][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.576][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.577][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.578][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.580][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.583][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.584][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.586][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.591][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.592][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.594][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.601][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.603][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.604][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.605][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.607][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.610][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.611][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.618][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.623][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.624][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.626][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.627][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.631][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.632][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.634][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.635][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.639][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.640][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.642][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.643][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.683][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-03-31 20:15:08.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:08.704][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-03-31 20:15:08.705][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:08.707][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-03-31 20:15:08.708][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:08.709][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-03-31 20:15:08.710][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:08.712][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:08.713][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:08.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:08.725][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.726][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.727][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.732][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.733][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.735][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.736][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.740][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.741][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.742][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.744][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.747][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.748][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.750][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.755][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.756][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.758][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.762][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.763][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.765][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.766][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.769][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.770][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.774][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.775][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.777][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.786][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.787][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.789][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.794][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.795][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.797][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.798][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.802][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.803][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.804][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.805][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.845][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-03-31 20:15:08.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:08.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:08.867][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-03-31 20:15:08.868][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:08.869][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-03-31 20:15:08.870][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:08.872][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-03-31 20:15:08.873][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:08.874][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:08.875][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:08.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:08.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:08.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:08.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:08.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:08.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:08.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:08.887][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.888][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.889][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.894][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.895][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.897][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.898][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:08.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:08.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.902][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.903][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.905][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.906][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:08.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:08.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.909][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.910][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.912][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:08.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:08.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.917][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.918][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.920][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:08.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.925][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.926][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:08.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.927][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.929][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.930][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.931][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.932][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:08.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:08.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.936][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.937][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.939][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:08.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.948][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.949][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.951][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.952][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:08.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:08.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.956][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.957][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.959][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.960][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:08.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:08.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.964][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.965][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.967][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.968][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:08.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:08.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:08.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:08.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:08.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:08.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:08.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.008][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-03-31 20:15:09.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:09.030][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-03-31 20:15:09.031][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:09.032][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-03-31 20:15:09.034][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:09.035][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-03-31 20:15:09.036][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:09.037][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:09.038][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:09.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:09.050][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.051][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.053][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.058][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.059][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.061][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.062][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.065][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.066][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.068][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.069][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.073][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:09.074][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:09.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.076][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.077][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.078][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.080][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.081][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.082][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.083][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.084][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.085][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.087][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.088][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.092][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.093][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.095][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.100][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.101][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.102][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.104][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.112][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.113][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.114][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.115][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.119][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:09.120][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:09.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.122][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.160][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-03-31 20:15:09.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.180][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[2025-03-31 20:15:09.181][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-03-31 20:15:09.182][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:09.184][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-03-31 20:15:09.185][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:09.187][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-03-31 20:15:09.188][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:09.189][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:09.190][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:09.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:09.202][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.203][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.205][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.210][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.211][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.212][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.213][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.217][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.218][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.220][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.221][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.225][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:09.226][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:09.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.228][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.229][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.230][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.231][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.233][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.234][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.235][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.237][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.238][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.239][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.240][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.244][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.245][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.247][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.252][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.253][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.255][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.260][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.261][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.263][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.264][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.268][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:09.298][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:09.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.301][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.339][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-03-31 20:15:09.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.360][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[2025-03-31 20:15:09.361][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-03-31 20:15:09.362][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:09.363][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-03-31 20:15:09.364][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:09.382][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-03-31 20:15:09.383][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:09.384][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:09.386][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:09.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:09.398][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.399][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.401][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.406][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.407][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.409][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.410][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.414][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.415][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.417][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.418][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.422][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:09.423][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:09.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.424][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:09.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:09.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.429][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.430][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.432][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.437][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.438][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.440][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.441][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.442][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.444][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.445][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.449][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.450][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.452][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.457][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.458][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.459][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.464][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.465][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.467][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.468][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.472][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:09.473][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:09.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.475][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.476][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:09.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:09.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.522][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-03-31 20:15:09.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.543][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.DEBUG[2025-03-31 20:15:09.544][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-03-31 20:15:09.545][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:09.546][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-03-31 20:15:09.547][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:09.549][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-03-31 20:15:09.550][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:09.552][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:09.553][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:09.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:09.567][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.568][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.571][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.578][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.579][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.580][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.582][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.586][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.587][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.588][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.590][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.594][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:09.595][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:09.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.596][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:09.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:09.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.601][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.602][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.604][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.605][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.609][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.611][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.613][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.614][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.615][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.617][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.618][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.623][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.625][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.627][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.632][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.633][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.635][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.636][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.640][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.641][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.643][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.644][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.648][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:09.649][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:09.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.650][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.651][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:09.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:09.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.697][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-03-31 20:15:09.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.717][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[2025-03-31 20:15:09.719][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-03-31 20:15:09.719][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:09.721][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-03-31 20:15:09.722][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:09.724][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-03-31 20:15:09.725][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:09.726][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:09.727][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:09.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:09.739][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.740][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.742][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.747][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.748][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.750][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.751][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.755][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.756][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.758][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.759][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.763][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:09.764][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:09.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.765][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.767][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:09.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:09.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.770][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.771][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.773][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.778][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.779][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.781][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.782][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.783][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.785][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.786][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.790][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.791][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.793][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.798][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.799][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.800][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.806][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.807][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.808][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.810][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.813][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:09.814][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:09.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.816][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.817][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:09.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:09.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:09.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.864][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-03-31 20:15:09.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:09.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:09.886][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-03-31 20:15:09.886][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:09.888][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-03-31 20:15:09.889][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:09.891][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-03-31 20:15:09.892][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:09.893][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:09.899][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:09.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:09.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:09.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:09.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:09.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:09.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:09.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:09.917][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.918][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.920][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:09.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:09.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.926][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.927][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.929][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.930][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:09.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:09.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.934][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.935][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.937][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.939][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:09.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:09.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.943][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:09.944][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:09.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.946][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:09.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:09.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.951][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.952][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.954][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:09.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.960][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.961][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:09.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.963][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.965][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.966][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.968][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.969][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:09.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:09.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.973][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.975][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.977][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:09.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.983][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.984][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.986][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.987][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:09.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:09.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.992][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.993][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.995][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:09.996][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:09.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:09.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:09.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.000][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:10.001][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:10.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.003][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.004][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:10.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:10.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.064][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-03-31 20:15:10.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:10.088][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-03-31 20:15:10.089][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:10.090][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-03-31 20:15:10.092][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:10.093][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-03-31 20:15:10.094][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:10.096][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:10.097][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:10.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.109][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.110][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.112][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.117][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:10.118][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:10.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.120][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.121][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:10.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:10.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.125][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:10.126][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:10.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.127][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.129][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:10.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:10.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.133][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:10.134][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:10.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.136][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:10.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:10.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.141][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.142][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.144][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.149][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:10.150][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:10.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.152][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.153][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:10.154][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.156][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.157][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:10.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.161][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.162][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.164][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.169][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:10.170][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:10.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.171][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:10.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:10.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.176][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:10.177][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:10.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.179][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.180][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:10.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:10.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.184][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:10.185][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:10.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.187][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.188][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:10.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:10.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.234][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-03-31 20:15:10.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.242][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:10.255][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-03-31 20:15:10.256][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:10.258][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-03-31 20:15:10.259][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:10.260][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-03-31 20:15:10.261][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:10.263][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:10.264][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:10.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.278][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.279][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.280][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.285][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:10.286][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:10.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.288][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:10.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:10.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.293][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:10.294][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:10.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.296][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.297][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:10.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:10.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.301][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:10.302][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:10.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.304][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:10.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:10.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.308][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.309][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.311][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.316][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:10.317][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:10.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.319][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.320][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:10.321][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.323][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.324][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:10.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.328][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.329][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.331][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.336][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:10.337][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:10.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.338][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:10.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:10.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.344][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:10.345][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:10.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.346][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.347][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:10.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:10.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.351][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:10.352][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:10.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.354][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.355][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:10.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:10.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.402][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-03-31 20:15:10.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:10.423][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-03-31 20:15:10.424][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:10.426][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-03-31 20:15:10.427][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:10.428][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-03-31 20:15:10.429][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:10.431][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:10.432][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:10.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.434][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.444][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.445][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.447][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.452][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:10.453][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:10.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.455][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.456][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:10.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:10.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.459][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:10.460][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:10.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.462][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.464][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:10.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:10.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.467][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:10.468][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:10.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.470][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:10.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:10.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.475][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.476][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.478][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:10.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.483][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:10.484][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:10.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.485][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.486][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:10.487][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.489][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.490][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:10.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.495][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.496][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.497][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:10.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.502][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:10.503][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:10.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.505][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.506][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:10.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:10.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.510][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:10.511][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:10.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.513][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.514][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:10.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:10.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.518][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:10.519][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:10.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.521][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.522][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:10.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:10.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:10.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:10.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:10.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.567][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-03-31 20:15:10.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.596][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[2025-03-31 20:15:10.599][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:10.601][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-31 20:15:10.602][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:10.603][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-31 20:15:10.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.612][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.766][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.TRACE[2025-03-31 20:15:10.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.829][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.TRACE[2025-03-31 20:15:10.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.849][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.897][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[2025-03-31 20:15:10.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.902][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.959][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.TRACE[2025-03-31 20:15:10.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:10.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:10.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:10.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:10.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:10.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:10.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:10.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:10.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:10.994][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:10.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:10.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.002][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.TRACE[2025-03-31 20:15:11.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.118][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[2025-03-31 20:15:11.121][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:11.123][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-03-31 20:15:11.124][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:11.126][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-03-31 20:15:11.129][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[2025-03-31 20:15:11.132][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:11.133][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-03-31 20:15:11.134][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:11.135][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-03-31 20:15:11.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:11.147][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-03-31 20:15:11.148][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:11.150][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-03-31 20:15:11.151][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:11.152][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-03-31 20:15:11.153][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:11.154][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:11.156][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:11.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.168][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.169][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.171][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.176][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:11.177][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:11.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.179][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.180][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:11.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:11.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.184][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:11.185][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:11.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.187][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.188][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:11.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:11.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.192][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:11.193][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:11.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.195][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:11.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:11.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.200][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:11.201][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:11.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.202][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:11.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:11.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.208][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:11.209][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:11.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.211][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.217][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:11.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:11.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.221][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:11.222][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.224][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.225][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:11.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.229][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.230][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.232][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.237][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:11.238][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:11.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.239][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.241][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:11.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:11.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.245][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:11.246][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:11.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.247][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.248][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:11.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:11.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.252][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:11.253][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:11.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.255][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.256][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:11.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:11.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.296][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-03-31 20:15:11.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.316][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.338][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[2025-03-31 20:15:11.339][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-03-31 20:15:11.340][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:11.341][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-03-31 20:15:11.343][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:11.344][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-03-31 20:15:11.345][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:11.346][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:11.347][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:11.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.359][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.360][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.362][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.367][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:11.368][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:11.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.370][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.371][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:11.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:11.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.374][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:11.375][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:11.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.377][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.383][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:11.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:11.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.387][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:11.388][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:11.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.390][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:11.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:11.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.396][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:11.397][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:11.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.399][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:11.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:11.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.404][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:11.405][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:11.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.407][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.408][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:11.409][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.411][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.412][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:11.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:11.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.416][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.417][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.419][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.424][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:11.425][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:11.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.427][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:11.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:11.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.434][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:11.435][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:11.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.437][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.438][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:11.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:11.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.442][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:11.443][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:11.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.444][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.446][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:11.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:11.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:11.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:11.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:11.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.486][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-03-31 20:15:11.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.518][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[2025-03-31 20:15:11.523][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:11.524][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-31 20:15:11.526][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:11.527][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-31 20:15:11.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.670][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.TRACE[2025-03-31 20:15:11.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.841][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.TRACE[2025-03-31 20:15:11.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.886][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[2025-03-31 20:15:11.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:11.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:11.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:11.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:11.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:11.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:11.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:11.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:11.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:11.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:11.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:11.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.004][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[2025-03-31 20:15:12.007][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:12.009][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-31 20:15:12.010][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:12.011][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-31 20:15:12.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.022][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[2025-03-31 20:15:12.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.133][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.TRACE[2025-03-31 20:15:12.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.365][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[2025-03-31 20:15:12.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.386][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.TRACE[2025-03-31 20:15:12.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.486][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-31 20:15:12.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-31 20:15:12.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-31 20:15:12.497][biodb::testThat]
biodb.INFO [2025-03-31 20:15:12.498][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-03-31 20:15:12.499][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:12.500][biodb::testThat]
biodb.TRACE[2025-03-31 20:15:12.503][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-31 20:15:12.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-31 20:15:12.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.533][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[2025-03-31 20:15:12.535][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[2025-03-31 20:15:12.538][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:12.539][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-31 20:15:12.541][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:12.542][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-31 20:15:12.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.553][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.TRACE[2025-03-31 20:15:12.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.566][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[2025-03-31 20:15:12.574][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:12.575][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-31 20:15:12.576][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:12.577][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-31 20:15:12.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.589][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.TRACE[2025-03-31 20:15:12.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:12.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.622][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-31 20:15:12.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.632][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[2025-03-31 20:15:12.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.641][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.642][private$selectFields]
biodb.TRACE[2025-03-31 20:15:12.643][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:12.644][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:12.644][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.645][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.646][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.648][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.649][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.650][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.652][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.653][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.654][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.655][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.657][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.658][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:12.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.680][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-31 20:15:12.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.698][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.699][private$selectFields]
biodb.TRACE[2025-03-31 20:15:12.700][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:12.701][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:12.702][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.703][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.704][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.705][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.706][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.707][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.709][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.710][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.711][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.712][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.715][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.716][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:12.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.728][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-31 20:15:12.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.743][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.TRACE[2025-03-31 20:15:12.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.753][private$selectFields]
biodb.TRACE[2025-03-31 20:15:12.754][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:12.755][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:12.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.756][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.757][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.759][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.760][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.761][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.763][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.764][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.765][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:12.766][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.767][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.768][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.769][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:12.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:12.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.783][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-31 20:15:12.784][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-31 20:15:12.785][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-31 20:15:12.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.871][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[2025-03-31 20:15:12.873][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[2025-03-31 20:15:12.876][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:12.877][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-31 20:15:12.879][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:12.880][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-31 20:15:12.883][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[2025-03-31 20:15:12.886][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:12.887][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-31 20:15:12.896][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:12.898][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-31 20:15:12.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.909][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.TRACE[2025-03-31 20:15:12.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:12.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:12.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:12.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:12.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:12.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:12.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:12.951][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[2025-03-31 20:15:12.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:12.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:12.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:12.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:12.986][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-31 20:15:13.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.018][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.TRACE[2025-03-31 20:15:13.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.028][private$selectFields]
biodb.TRACE[2025-03-31 20:15:13.028][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:13.029][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:13.030][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.031][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.032][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.034][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.035][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.036][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.038][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.038][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.039][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.040][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.041][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.043][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.044][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:13.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.062][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-31 20:15:13.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:13.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.113][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.114][private$selectFields]
biodb.TRACE[2025-03-31 20:15:13.115][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:13.116][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:13.117][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.118][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.119][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.120][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.121][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.124][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.125][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.135][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.136][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.137][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.139][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.140][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:13.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.152][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-31 20:15:13.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.162][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[2025-03-31 20:15:13.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.171][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.172][private$selectFields]
biodb.TRACE[2025-03-31 20:15:13.172][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:13.173][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:13.174][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.176][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.178][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.179][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.180][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.182][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.183][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.183][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.184][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.185][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.187][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.188][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:13.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.201][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-31 20:15:13.206][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-31 20:15:13.207][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-31 20:15:13.215][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-31 20:15:13.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-31 20:15:13.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-31 20:15:13.222][biodb::testThat]
biodb.INFO [2025-03-31 20:15:13.223][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-03-31 20:15:13.224][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:13.225][biodb::testThat]
biodb.TRACE[2025-03-31 20:15:13.228][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-31 20:15:13.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-31 20:15:13.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:13.260][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[2025-03-31 20:15:13.263][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:13.264][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-31 20:15:13.265][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:13.266][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-31 20:15:13.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:13.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.290][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[2025-03-31 20:15:13.293][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:13.295][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-31 20:15:13.296][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:13.297][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-31 20:15:13.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.300][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.308][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[2025-03-31 20:15:13.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:13.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.341][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-31 20:15:13.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.352][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.TRACE[2025-03-31 20:15:13.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.361][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.362][private$selectFields]
biodb.TRACE[2025-03-31 20:15:13.362][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:13.363][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:13.364][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.365][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.366][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.368][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.369][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.370][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.377][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.378][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.379][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.380][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.383][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.384][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:13.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.397][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-31 20:15:13.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:13.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.422][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.423][private$selectFields]
biodb.TRACE[2025-03-31 20:15:13.424][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:13.425][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:13.426][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.427][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.429][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.431][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.432][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.433][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.435][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.436][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.437][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.438][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.439][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.441][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.442][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:13.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.456][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-31 20:15:13.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.468][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.TRACE[2025-03-31 20:15:13.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.478][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.479][private$selectFields]
biodb.TRACE[2025-03-31 20:15:13.480][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:13.481][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:13.482][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.483][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.484][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.486][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.487][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.488][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.490][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.491][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.492][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.493][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.494][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.496][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.497][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:13.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.511][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-31 20:15:13.512][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-31 20:15:13.513][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-31 20:15:13.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:13.555][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[2025-03-31 20:15:13.558][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:13.560][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-31 20:15:13.561][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:13.562][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-31 20:15:13.580][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[2025-03-31 20:15:13.584][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:13.586][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-31 20:15:13.587][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:13.589][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-31 20:15:13.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:13.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:13.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:13.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:13.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.657][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-31 20:15:13.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.667][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[2025-03-31 20:15:13.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.675][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.676][private$selectFields]
biodb.TRACE[2025-03-31 20:15:13.677][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:13.678][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:13.679][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.680][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.681][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.683][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.684][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.686][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.687][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.688][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.689][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.690][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.692][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.693][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:13.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.705][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-31 20:15:13.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:13.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.724][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.724][private$selectFields]
biodb.TRACE[2025-03-31 20:15:13.725][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:13.726][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:13.727][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.728][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.729][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.731][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.732][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.734][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.735][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.736][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.740][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.741][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:13.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.759][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-31 20:15:13.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.770][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.TRACE[2025-03-31 20:15:13.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.779][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.779][private$selectFields]
biodb.TRACE[2025-03-31 20:15:13.780][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:13.781][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:13.782][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.783][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.784][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.786][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.787][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.788][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.790][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.791][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.792][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.792][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.794][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.795][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.796][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:13.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.809][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-31 20:15:13.810][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-31 20:15:13.811][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-31 20:15:13.819][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-31 20:15:13.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-31 20:15:13.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-31 20:15:13.825][biodb::testThat]
biodb.INFO [2025-03-31 20:15:13.826][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-03-31 20:15:13.827][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:13.828][biodb::testThat]
biodb.TRACE[2025-03-31 20:15:13.831][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-31 20:15:13.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-31 20:15:13.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:13.865][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[2025-03-31 20:15:13.868][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:13.870][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-31 20:15:13.871][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:13.872][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-31 20:15:13.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:13.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.896][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-31 20:15:13.899][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:13.900][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-31 20:15:13.902][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:13.903][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-31 20:15:13.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:13.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.942][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[2025-03-31 20:15:13.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:13.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:13.954][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-31 20:15:13.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:13.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:13.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:13.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:13.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:13.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:13.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:13.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.973][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.974][private$selectFields]
biodb.TRACE[2025-03-31 20:15:13.975][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:13.976][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:13.977][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.980][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.981][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.984][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.985][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.986][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:13.987][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.988][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.990][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.991][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:13.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:13.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:13.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:13.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.003][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-31 20:15:14.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:14.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.022][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.023][private$selectFields]
biodb.TRACE[2025-03-31 20:15:14.023][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:14.024][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:14.025][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.026][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.029][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.030][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.031][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.033][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.034][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.035][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.036][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.037][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.038][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.039][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:14.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.052][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-31 20:15:14.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.062][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.TRACE[2025-03-31 20:15:14.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.071][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.072][private$selectFields]
biodb.TRACE[2025-03-31 20:15:14.072][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:14.073][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:14.074][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.075][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.076][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.078][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.079][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.082][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.083][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.090][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.091][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.093][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.095][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.096][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:14.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.109][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-31 20:15:14.110][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-31 20:15:14.111][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-31 20:15:14.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:14.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:14.161][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[2025-03-31 20:15:14.164][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:14.166][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-31 20:15:14.167][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:14.168][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-31 20:15:14.172][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[2025-03-31 20:15:14.175][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:14.177][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-31 20:15:14.178][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:14.179][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-31 20:15:14.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:14.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:14.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:14.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:14.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.237][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.TRACE[2025-03-31 20:15:14.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:14.249][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-31 20:15:14.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.260][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[2025-03-31 20:15:14.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.274][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.275][private$selectFields]
biodb.TRACE[2025-03-31 20:15:14.276][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:14.277][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:14.278][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.279][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.280][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.282][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.283][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.284][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.285][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.286][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.287][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.288][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.289][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.291][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.292][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:14.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.305][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-31 20:15:14.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:14.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.324][private$selectFields]
biodb.TRACE[2025-03-31 20:15:14.325][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:14.326][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:14.327][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.328][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.329][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.331][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.332][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.333][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.334][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.335][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.336][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.337][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.338][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.340][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.341][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:14.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.354][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-31 20:15:14.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:14.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.372][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.373][private$selectFields]
biodb.TRACE[2025-03-31 20:15:14.374][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-31 20:15:14.375][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-31 20:15:14.376][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.380][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.381][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.382][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.384][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.385][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.385][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-31 20:15:14.386][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.387][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.389][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.390][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-31 20:15:14.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.403][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-31 20:15:14.404][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-31 20:15:14.405][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-31 20:15:14.422][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-31 20:15:14.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-31 20:15:14.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-31 20:15:14.429][biodb::testThat]
biodb.INFO [2025-03-31 20:15:14.430][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-03-31 20:15:14.431][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:14.437][biodb::testThat]
biodb.DEBUG[2025-03-31 20:15:14.439][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-31 20:15:14.440][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:14.441][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-31 20:15:14.443][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:14.444][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-03-31 20:15:14.445][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:14.446][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:14.448][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:14.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:14.460][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.463][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.468][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:14.469][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:14.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.471][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.472][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:14.473][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:14.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.475][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.476][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:14.477][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:14.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.479][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.480][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.481][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.483][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.484][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.485][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.487][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.488][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:14.489][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:14.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.491][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.492][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.493][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.494][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.496][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:14.497][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:14.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.498][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.500][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:14.501][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:14.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.502][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.504][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:14.505][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:14.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.507][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:14.548][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-03-31 20:15:14.548][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-31 20:15:14.556][biodb::testThat]
biodb.INFO [2025-03-31 20:15:14.557][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-31 20:15:14.558][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:14.559][biodb::testThat]
biodb.DEBUG[2025-03-31 20:15:14.575][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-03-31 20:15:14.577][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-03-31 20:15:14.578][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-03-31 20:15:14.579][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-03-31 20:15:14.581][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-03-31 20:15:14.583][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-03-31 20:15:14.584][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:14.586][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-03-31 20:15:14.587][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:14.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:14.599][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.600][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.602][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.608][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:14.609][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:14.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.610][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.612][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:14.618][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:14.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.620][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.621][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:14.622][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:14.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.624][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.625][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.626][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.628][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.629][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.630][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.632][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.633][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:14.634][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:14.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.636][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.637][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.638][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.640][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.641][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:14.642][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:14.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.644][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.645][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:14.646][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:14.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.648][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.649][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:14.650][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:14.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.652][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:14.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:14.691][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.692][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.693][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.698][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:14.699][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:14.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.701][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.702][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:14.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:14.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.706][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:14.707][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:14.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.709][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.710][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:14.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:14.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.714][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:14.715][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:14.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.717][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.718][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:14.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:14.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.722][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.723][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.725][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.730][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.731][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.732][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.734][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.738][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:14.739][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:14.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.740][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.741][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:14.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:14.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.745][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.746][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.748][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.753][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:14.754][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:14.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.756][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.757][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:14.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:14.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.761][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:14.762][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:14.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.764][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.766][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:14.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:14.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.769][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:14.770][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:14.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.772][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.773][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:14.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:14.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:14.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:14.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:14.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:14.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:14.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:14.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:14.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:14.821][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.822][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.823][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.828][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:14.829][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:14.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.831][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.832][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:14.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:14.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.836][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:14.837][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:14.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.839][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.840][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:14.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:14.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.844][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:14.845][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:14.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.846][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.848][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:14.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:14.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.851][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.852][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.854][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.855][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:14.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.859][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.860][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.862][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.863][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:14.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.867][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:14.868][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:14.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.870][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.871][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:14.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:14.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.875][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.876][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.877][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:14.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.882][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:14.883][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:14.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.885][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:14.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:14.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.890][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:14.891][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:14.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.893][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.894][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:14.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:14.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.898][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:14.899][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:14.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.901][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.902][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:14.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:14.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:14.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:14.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:14.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:14.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:14.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:14.973][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-03-31 20:15:14.974][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-31 20:15:14.974][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-03-31 20:15:14.986][biodb::testThat]
biodb.INFO [2025-03-31 20:15:14.988][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-03-31 20:15:14.989][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:14.989][biodb::testThat]
biodb.INFO [2025-03-31 20:15:15.014][biodb::testThat]
biodb.INFO [2025-03-31 20:15:15.015][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-03-31 20:15:15.016][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:15.017][biodb::testThat]
biodb.INFO [2025-03-31 20:15:15.024][biodb::testThat]
biodb.INFO [2025-03-31 20:15:15.025][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-03-31 20:15:15.026][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:15.027][biodb::testThat]
biodb.DEBUG[2025-03-31 20:15:15.029][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[2025-03-31 20:15:15.033][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:15.034][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-03-31 20:15:15.035][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:15.037][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-03-31 20:15:15.048][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:15.049][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:15.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:15.051][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:15.052][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:15.053][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:15.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:15.055][ef$get] fields variable is a list.
biodb.INFO [2025-03-31 20:15:15.056][biodb::testThat]
biodb.INFO [2025-03-31 20:15:15.057][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-03-31 20:15:15.058][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:15.059][biodb::testThat]
biodb.ERROR[2025-03-31 20:15:15.073][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-03-31 20:15:15.090][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-03-31 20:15:15.103][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-31 20:15:15.104][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-31 20:15:15.106][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-31 20:15:15.106][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-31 20:15:15.107][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.109][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.111][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.112][FUN] Functions in observer BiodbConfig: [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 [2025-03-31 20:15:15.129][biodb::testContext]
biodb.INFO [2025-03-31 20:15:15.130][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-31 20:15:15.131][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-03-31 20:15:15.132][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-31 20:15:15.132][biodb::testContext]
biodb.INFO [2025-03-31 20:15:15.134][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-31 20:15:15.136][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-31 20:15:15.140][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:15.141][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-31 20:15:15.142][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-31 20:15:15.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.145][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-31 20:15:15.146][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-31 20:15:15.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.149][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[2025-03-31 20:15:15.150][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-31 20:15:15.151][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-31 20:15:15.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.154][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-31 20:15:15.155][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-31 20:15:15.156][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-31 20:15:15.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.159][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-31 20:15:15.160][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-31 20:15:15.161][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-31 20:15:15.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.165][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-31 20:15:15.165][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-31 20:15:15.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.169][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-31 20:15:15.170][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-31 20:15:15.171][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-31 20:15:15.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.174][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-31 20:15:15.175][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-31 20:15:15.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.179][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-31 20:15:15.179][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-31 20:15:15.180][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-31 20:15:15.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.184][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-31 20:15:15.185][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-31 20:15:15.186][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-31 20:15:15.187][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-31 20:15:15.188][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-31 20:15:15.189][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-31 20:15:15.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.192][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-31 20:15:15.193][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-31 20:15:15.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.196][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-31 20:15:15.197][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-31 20:15:15.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.201][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-31 20:15:15.202][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-31 20:15:15.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.205][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-31 20:15:15.206][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-31 20:15:15.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.209][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-31 20:15:15.210][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-31 20:15:15.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.214][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-31 20:15:15.215][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-31 20:15:15.219][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-31 20:15:15.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.222][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-31 20:15:15.223][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-31 20:15:15.224][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-31 20:15:15.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.227][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-31 20:15:15.229][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.230][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-31 20:15:15.231][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.232][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:15.233][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.234][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.235][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.236][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.237][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-31 20:15:15.238][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:15.239][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.240][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-31 20:15:15.241][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:15.241][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.242][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.243][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:15.243][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:15.243][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:15.243][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-31 20:15:15.243][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-31 20:15:15.244][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:15.245][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:15.246][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:15.247][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:15.248][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:15.249][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:15.250][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.251][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.252][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:15.252][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:15.253][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.254][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.255][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-31 20:15:15.257][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.258][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-31 20:15:15.259][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.260][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:15.261][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.262][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.263][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.263][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.264][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-31 20:15:15.265][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:15.266][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.267][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-31 20:15:15.268][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:15.269][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.270][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.271][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:15.271][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:15.271][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:15.271][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-31 20:15:15.271][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-31 20:15:15.272][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:15.273][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:15.274][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:15.275][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:15.276][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:15.276][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:15.277][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.278][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.279][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:15.285][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:15.286][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.287][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.288][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-31 20:15:15.290][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.291][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-31 20:15:15.292][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.293][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:15.294][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.295][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.296][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.297][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.298][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-31 20:15:15.299][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:15.300][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.301][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-31 20:15:15.302][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:15.303][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.303][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.304][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.305][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:15.306][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:15.307][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:15.308][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:15.309][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:15.310][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:15.311][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.312][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.312][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:15.313][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:15.314][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.315][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.316][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-31 20:15:15.318][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.319][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-31 20:15:15.320][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.321][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:15.321][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.322][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.323][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.324][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.325][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-31 20:15:15.326][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:15.327][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.328][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-31 20:15:15.329][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:15.330][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.331][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.332][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.333][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:15.333][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:15.334][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:15.335][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:15.336][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:15.337][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:15.338][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.339][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.340][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:15.340][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:15.341][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.342][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:15.343][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:15.344][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.375][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.DEBUG[2025-03-31 20:15:15.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.387][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.DEBUG[2025-03-31 20:15:15.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.392][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[2025-03-31 20:15:15.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.404][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[2025-03-31 20:15:15.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.408][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".
biodb.DEBUG[2025-03-31 20:15:15.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.418][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-31 20:15:15.419][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-31 20:15:15.421][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-31 20:15:15.422][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-31 20:15:15.423][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-31 20:15:15.425][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-31 20:15:15.426][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-31 20:15:15.427][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-31 20:15:15.428][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-31 20:15:15.430][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-31 20:15:15.431][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-31 20:15:15.432][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-31 20:15:15.434][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-31 20:15:15.435][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-31 20:15:15.436][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-31 20:15:15.443][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-31 20:15:15.444][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-31 20:15:15.446][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-31 20:15:15.447][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-31 20:15:15.449][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-31 20:15:15.450][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-31 20:15:15.451][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-31 20:15:15.453][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-31 20:15:15.454][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-31 20:15:15.455][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-31 20:15:15.456][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-31 20:15:15.458][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-31 20:15:15.459][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-31 20:15:15.460][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-31 20:15:15.462][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-31 20:15:15.463][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-31 20:15:15.464][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-31 20:15:15.466][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-31 20:15:15.467][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-31 20:15:15.468][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-31 20:15:15.470][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-31 20:15:15.471][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-31 20:15:15.472][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-31 20:15:15.473][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-31 20:15:15.475][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-31 20:15:15.476][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-31 20:15:15.477][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-31 20:15:15.479][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-31 20:15:15.480][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-31 20:15:15.481][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-31 20:15:15.482][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-31 20:15:15.484][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-31 20:15:15.485][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-31 20:15:15.486][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-31 20:15:15.488][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-31 20:15:15.489][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-31 20:15:15.490][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-31 20:15:15.492][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-31 20:15:15.493][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-31 20:15:15.494][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-31 20:15:15.495][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-31 20:15:15.497][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-31 20:15:15.498][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-31 20:15:15.499][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-31 20:15:15.501][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-31 20:15:15.502][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-31 20:15:15.503][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-31 20:15:15.505][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-31 20:15:15.506][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-31 20:15:15.507][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-31 20:15:15.508][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-31 20:15:15.510][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-31 20:15:15.511][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-31 20:15:15.512][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-31 20:15:15.514][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-31 20:15:15.515][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-31 20:15:15.516][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-31 20:15:15.518][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-31 20:15:15.519][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-31 20:15:15.520][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-31 20:15:15.522][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-31 20:15:15.523][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-31 20:15:15.524][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-31 20:15:15.525][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-31 20:15:15.527][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-31 20:15:15.528][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-31 20:15:15.529][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-31 20:15:15.531][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-31 20:15:15.532][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-31 20:15:15.534][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-31 20:15:15.535][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:15.535][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.537][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.562][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[2025-03-31 20:15:15.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.574][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[2025-03-31 20:15:15.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.580][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[2025-03-31 20:15:15.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.646][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[2025-03-31 20:15:15.648][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-31 20:15:15.649][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-31 20:15:15.651][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.652][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.653][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.654][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:15.655][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.656][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.657][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.658][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-31 20:15:15.658][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-31 20:15:15.659][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:15.660][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.661][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-31 20:15:15.662][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:15.663][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-31 20:15:15.663][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-31 20:15:15.663][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-31 20:15:15.663][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-31 20:15:15.663][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-31 20:15:15.663][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-31 20:15:15.663][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-31 20:15:15.663][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-31 20:15:15.663][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-31 20:15:15.663][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-31 20:15:15.663][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-31 20:15:15.664][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:15.665][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:15.665][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:15.665][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:15.666][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-31 20:15:15.667][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:15.668][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:15.669][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:15.670][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:15.671][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:15.672][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:15.673][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-31 20:15:15.673][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-31 20:15:15.674][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:15.674][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:15.675][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:15.676][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-31 20:15:15.676][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-31 20:15:15.677][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-31 20:15:15.679][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-31 20:15:15.681][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-31 20:15:15.682][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-31 20:15:15.684][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-31 20:15:15.685][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-31 20:15:15.688][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-31 20:15:15.689][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-31 20:15:15.690][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-31 20:15:15.692][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-31 20:15:15.693][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-31 20:15:15.694][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-31 20:15:15.695][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-31 20:15:15.696][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-31 20:15:15.698][biodb::testThat]
biodb.INFO [2025-03-31 20:15:15.699][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-03-31 20:15:15.700][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:15.700][biodb::testThat]
biodb.DEBUG[2025-03-31 20:15:15.704][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-31 20:15:15.708][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:15.709][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-31 20:15:15.711][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:15.712][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-31 20:15:15.716][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[2025-03-31 20:15:15.719][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:15.720][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-31 20:15:15.721][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:15.723][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-31 20:15:15.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:15.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.736][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[2025-03-31 20:15:15.739][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:15.740][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-31 20:15:15.741][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:15.743][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-31 20:15:15.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:15.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.754][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[2025-03-31 20:15:15.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:15.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.793][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[2025-03-31 20:15:15.797][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:15.798][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-31 20:15:15.799][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:15.800][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-31 20:15:15.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:15.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.813][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[2025-03-31 20:15:15.816][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:15.818][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-31 20:15:15.819][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:15.820][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-31 20:15:15.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:15.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:15.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.841][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[2025-03-31 20:15:15.845][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[2025-03-31 20:15:15.849][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:15.850][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-31 20:15:15.851][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:15.852][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-31 20:15:15.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:15.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.866][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[2025-03-31 20:15:15.869][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:15.871][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-31 20:15:15.872][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:15.874][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-31 20:15:15.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:15.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.887][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[2025-03-31 20:15:15.890][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:15.892][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2025-03-31 20:15:15.893][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:15.894][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2025-03-31 20:15:15.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:15.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-31 20:15:15.912][biodb::testThat]
biodb.INFO [2025-03-31 20:15:15.913][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-03-31 20:15:15.914][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:15.915][biodb::testThat]
biodb.DEBUG[2025-03-31 20:15:15.918][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[2025-03-31 20:15:15.921][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:15.923][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2025-03-31 20:15:15.924][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:15.925][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2025-03-31 20:15:15.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:15.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.939][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[2025-03-31 20:15:15.947][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:15.949][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2025-03-31 20:15:15.951][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:15.952][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2025-03-31 20:15:15.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:15.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-31 20:15:15.969][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-31 20:15:15.970][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-31 20:15:15.971][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-31 20:15:15.972][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-31 20:15:15.973][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:15.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:15.975][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:15.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:15.976][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.977][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.INFO [2025-03-31 20:15:15.981][biodb::testContext]
biodb.INFO [2025-03-31 20:15:15.982][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-31 20:15:15.982][biodb::testContext] Test context - Test web services
biodb.INFO [2025-03-31 20:15:15.983][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-31 20:15:15.984][biodb::testContext]
biodb.INFO [2025-03-31 20:15:15.986][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-31 20:15:15.988][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-31 20:15:15.992][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:15.993][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-31 20:15:15.994][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-31 20:15:15.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:15.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:15.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:15.997][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-31 20:15:15.999][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-31 20:15:15.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.002][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-31 20:15:16.003][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-31 20:15:16.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.007][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-31 20:15:16.008][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-31 20:15:16.009][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-31 20:15:16.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.012][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-31 20:15:16.013][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-31 20:15:16.014][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-31 20:15:16.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.018][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-31 20:15:16.019][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-31 20:15:16.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.022][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-31 20:15:16.023][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-31 20:15:16.024][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-31 20:15:16.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.028][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-31 20:15:16.029][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-31 20:15:16.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.033][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-31 20:15:16.034][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-31 20:15:16.035][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-31 20:15:16.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.038][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-31 20:15:16.039][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-31 20:15:16.040][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-31 20:15:16.041][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-31 20:15:16.042][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-31 20:15:16.043][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-31 20:15:16.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.046][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[2025-03-31 20:15:16.047][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-31 20:15:16.048][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-31 20:15:16.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.051][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-31 20:15:16.052][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-31 20:15:16.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.055][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-31 20:15:16.056][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-31 20:15:16.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.060][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-31 20:15:16.061][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-31 20:15:16.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.064][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-31 20:15:16.065][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-31 20:15:16.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.069][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-31 20:15:16.070][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-31 20:15:16.074][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-31 20:15:16.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.078][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-31 20:15:16.079][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-31 20:15:16.080][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-31 20:15:16.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.083][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-31 20:15:16.085][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.086][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-31 20:15:16.087][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.088][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:16.089][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.090][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.091][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.092][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.093][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-31 20:15:16.094][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:16.095][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.096][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-31 20:15:16.097][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:16.098][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.099][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.100][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:16.100][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:16.100][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:16.100][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-31 20:15:16.100][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-31 20:15:16.101][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:16.101][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.102][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.103][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:16.104][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.105][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.106][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.107][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.108][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:16.109][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:16.109][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.110][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.112][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-31 20:15:16.119][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.120][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-31 20:15:16.122][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.123][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:16.124][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.125][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.126][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.126][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.127][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-31 20:15:16.128][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:16.129][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.130][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-31 20:15:16.131][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:16.132][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.133][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.134][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:16.134][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:16.134][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:16.134][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-31 20:15:16.134][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-31 20:15:16.135][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:16.136][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.137][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.138][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:16.139][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.140][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.141][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.142][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.142][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:16.143][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:16.144][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.145][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.146][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-31 20:15:16.148][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.149][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-31 20:15:16.150][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.151][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:16.152][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.153][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.154][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.154][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.155][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-31 20:15:16.156][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:16.157][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.158][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-31 20:15:16.159][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:16.160][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.161][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.162][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.163][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:16.164][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.165][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.165][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:16.166][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.167][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.168][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.169][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.170][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:16.171][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:16.172][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.172][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.174][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-31 20:15:16.175][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.176][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-31 20:15:16.177][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.178][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:16.179][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.180][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.181][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.182][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.183][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-31 20:15:16.184][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:16.185][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.185][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-31 20:15:16.186][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:16.187][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.188][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.189][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.190][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:16.191][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.192][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.193][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:16.194][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.194][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.195][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.196][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.197][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:16.198][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:16.199][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.200][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.201][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:16.202][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.220][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[2025-03-31 20:15:16.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.228][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[2025-03-31 20:15:16.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.236][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[2025-03-31 20:15:16.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.280][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-31 20:15:16.282][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-31 20:15:16.283][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-31 20:15:16.284][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-31 20:15:16.286][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-31 20:15:16.287][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-31 20:15:16.288][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-31 20:15:16.290][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-31 20:15:16.291][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-31 20:15:16.292][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-31 20:15:16.294][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-31 20:15:16.295][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-31 20:15:16.296][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-31 20:15:16.297][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-31 20:15:16.299][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-31 20:15:16.300][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-31 20:15:16.301][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-31 20:15:16.303][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-31 20:15:16.304][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-31 20:15:16.305][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-31 20:15:16.306][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-31 20:15:16.308][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-31 20:15:16.309][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-31 20:15:16.310][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-31 20:15:16.312][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-31 20:15:16.313][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-31 20:15:16.314][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-31 20:15:16.315][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-31 20:15:16.317][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-31 20:15:16.318][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-31 20:15:16.319][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-31 20:15:16.321][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-31 20:15:16.322][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-31 20:15:16.323][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-31 20:15:16.324][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-31 20:15:16.326][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-31 20:15:16.327][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-31 20:15:16.328][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-31 20:15:16.330][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-31 20:15:16.331][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-31 20:15:16.332][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-31 20:15:16.333][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-31 20:15:16.335][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-31 20:15:16.336][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-31 20:15:16.337][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-31 20:15:16.339][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-31 20:15:16.340][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-31 20:15:16.341][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-31 20:15:16.342][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-31 20:15:16.344][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-31 20:15:16.345][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-31 20:15:16.346][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-31 20:15:16.348][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-31 20:15:16.349][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-31 20:15:16.350][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-31 20:15:16.351][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-31 20:15:16.353][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-31 20:15:16.354][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-31 20:15:16.355][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-31 20:15:16.357][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-31 20:15:16.358][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-31 20:15:16.359][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-31 20:15:16.360][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-31 20:15:16.362][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-31 20:15:16.363][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-31 20:15:16.364][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-31 20:15:16.366][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-31 20:15:16.367][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-31 20:15:16.368][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-31 20:15:16.369][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-31 20:15:16.371][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-31 20:15:16.372][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-31 20:15:16.373][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-31 20:15:16.375][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-31 20:15:16.376][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-31 20:15:16.377][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-31 20:15:16.379][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-31 20:15:16.380][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-31 20:15:16.381][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-31 20:15:16.383][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-31 20:15:16.384][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-31 20:15:16.385][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-31 20:15:16.386][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-31 20:15:16.388][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-31 20:15:16.389][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-31 20:15:16.390][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:16.391][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.393][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.394][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[2025-03-31 20:15:16.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.405][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[2025-03-31 20:15:16.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.624][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[2025-03-31 20:15:16.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.630][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[2025-03-31 20:15:16.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.646][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[2025-03-31 20:15:16.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.658][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[2025-03-31 20:15:16.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.670][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-31 20:15:16.671][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-31 20:15:16.673][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.674][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.675][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.676][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:16.677][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.678][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.679][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.680][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-31 20:15:16.681][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-31 20:15:16.681][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:16.682][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.683][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-31 20:15:16.684][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:16.685][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-31 20:15:16.685][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-31 20:15:16.685][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-31 20:15:16.685][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-31 20:15:16.685][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-31 20:15:16.685][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-31 20:15:16.685][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-31 20:15:16.685][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-31 20:15:16.685][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-31 20:15:16.685][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-31 20:15:16.685][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-31 20:15:16.686][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.687][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:16.687][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:16.687][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:16.688][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-31 20:15:16.689][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.690][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.691][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:16.691][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.692][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.693][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.694][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-31 20:15:16.694][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-31 20:15:16.695][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:16.696][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:16.697][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.697][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-31 20:15:16.697][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-31 20:15:16.699][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-31 20:15:16.700][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-31 20:15:16.702][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-31 20:15:16.703][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-31 20:15:16.704][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-31 20:15:16.706][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-31 20:15:16.709][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-31 20:15:16.710][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-31 20:15:16.711][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-31 20:15:16.712][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-31 20:15:16.714][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-31 20:15:16.714][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-31 20:15:16.716][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-31 20:15:16.717][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-31 20:15:16.718][biodb::testThat]
biodb.INFO [2025-03-31 20:15:16.719][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-03-31 20:15:16.720][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:16.721][biodb::testThat]
biodb.DEBUG[2025-03-31 20:15:16.724][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-31 20:15:16.727][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:16.728][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-31 20:15:16.729][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:16.731][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-31 20:15:16.734][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[2025-03-31 20:15:16.737][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:16.738][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-31 20:15:16.739][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:16.741][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2025-03-31 20:15:16.748][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-31 20:15:16.750][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-31 20:15:16.751][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-31 20:15:16.752][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-31 20:15:16.752][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:16.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:16.758][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.760][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.761][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.INFO [2025-03-31 20:15:16.764][biodb::testContext]
biodb.INFO [2025-03-31 20:15:16.765][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-31 20:15:16.766][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-03-31 20:15:16.767][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-31 20:15:16.768][biodb::testContext]
biodb.INFO [2025-03-31 20:15:16.769][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-31 20:15:16.771][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-31 20:15:16.775][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:16.775][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-31 20:15:16.776][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-31 20:15:16.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.780][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-31 20:15:16.781][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-31 20:15:16.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.784][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-31 20:15:16.785][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-31 20:15:16.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.788][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-31 20:15:16.789][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-31 20:15:16.790][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-31 20:15:16.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.793][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-31 20:15:16.794][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-31 20:15:16.795][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-31 20:15:16.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.798][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-31 20:15:16.799][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-31 20:15:16.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.803][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-31 20:15:16.804][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-31 20:15:16.804][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-31 20:15:16.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.808][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-31 20:15:16.809][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-31 20:15:16.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.812][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-31 20:15:16.813][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-31 20:15:16.814][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-31 20:15:16.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.817][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-31 20:15:16.818][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-31 20:15:16.819][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-31 20:15:16.820][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-31 20:15:16.821][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-31 20:15:16.822][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-31 20:15:16.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.825][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-31 20:15:16.826][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-31 20:15:16.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.829][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-31 20:15:16.830][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-31 20:15:16.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.833][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-31 20:15:16.834][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-31 20:15:16.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.838][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-31 20:15:16.839][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-31 20:15:16.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.841][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[2025-03-31 20:15:16.842][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-31 20:15:16.843][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-31 20:15:16.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.846][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-31 20:15:16.847][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-31 20:15:16.850][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-31 20:15:16.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.853][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-31 20:15:16.854][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-31 20:15:16.855][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-31 20:15:16.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.858][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-31 20:15:16.860][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.861][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-31 20:15:16.862][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.863][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:16.864][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.865][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.866][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.867][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.868][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-31 20:15:16.869][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:16.869][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.870][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-31 20:15:16.871][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:16.872][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.873][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.874][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:16.874][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:16.874][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:16.874][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-31 20:15:16.874][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-31 20:15:16.875][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:16.876][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.877][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.878][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:16.879][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.879][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.880][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.881][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.882][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:16.883][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:16.884][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.885][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.886][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-31 20:15:16.888][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.889][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-31 20:15:16.890][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.891][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:16.891][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.892][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.893][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.894][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.895][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-31 20:15:16.896][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:16.897][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.898][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-31 20:15:16.899][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:16.900][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.901][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.902][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:16.902][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:16.902][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:16.902][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-31 20:15:16.902][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-31 20:15:16.903][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:16.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.906][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:16.907][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.907][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.908][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.909][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.910][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:16.911][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:16.912][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.913][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.914][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-31 20:15:16.921][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.922][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-31 20:15:16.922][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.923][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:16.924][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.925][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.926][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.927][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.928][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-31 20:15:16.929][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:16.930][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.931][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-31 20:15:16.932][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:16.932][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.933][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.934][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.935][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:16.936][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.937][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.938][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:16.939][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.939][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.940][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.941][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.942][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:16.943][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:16.944][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.945][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.946][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-31 20:15:16.947][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.948][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-31 20:15:16.949][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.950][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:16.951][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.952][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.953][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.954][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.955][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-31 20:15:16.956][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:16.956][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.957][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-31 20:15:16.958][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:16.959][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.960][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:16.961][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.962][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-31 20:15:16.963][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.964][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.964][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:16.965][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:16.966][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:16.967][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:16.968][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.969][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:16.970][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:16.971][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:16.971][self$setPropertyValue]
biodb.DEBUG[2025-03-31 20:15:16.973][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:16.973][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.974][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[2025-03-31 20:15:16.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.982][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[2025-03-31 20:15:16.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:16.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:16.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:16.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:16.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:16.999][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[2025-03-31 20:15:17.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.015][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[2025-03-31 20:15:17.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.023][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[2025-03-31 20:15:17.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.045][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-31 20:15:17.047][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-31 20:15:17.048][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-31 20:15:17.050][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-31 20:15:17.051][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-31 20:15:17.052][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-31 20:15:17.054][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-31 20:15:17.055][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-31 20:15:17.056][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-31 20:15:17.058][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-31 20:15:17.059][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-31 20:15:17.060][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-31 20:15:17.061][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-31 20:15:17.063][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-31 20:15:17.064][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-31 20:15:17.065][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-31 20:15:17.067][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-31 20:15:17.068][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-31 20:15:17.069][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-31 20:15:17.071][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-31 20:15:17.072][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-31 20:15:17.078][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-31 20:15:17.079][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-31 20:15:17.080][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-31 20:15:17.082][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-31 20:15:17.083][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-31 20:15:17.084][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-31 20:15:17.086][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-31 20:15:17.087][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-31 20:15:17.088][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-31 20:15:17.089][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-31 20:15:17.091][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-31 20:15:17.092][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-31 20:15:17.093][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-31 20:15:17.094][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-31 20:15:17.096][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-31 20:15:17.097][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-31 20:15:17.098][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-31 20:15:17.100][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-31 20:15:17.101][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-31 20:15:17.102][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-31 20:15:17.103][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-31 20:15:17.105][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-31 20:15:17.106][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-31 20:15:17.107][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-31 20:15:17.109][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-31 20:15:17.110][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-31 20:15:17.111][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-31 20:15:17.112][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-31 20:15:17.114][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-31 20:15:17.115][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-31 20:15:17.116][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-31 20:15:17.117][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-31 20:15:17.119][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-31 20:15:17.120][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-31 20:15:17.121][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-31 20:15:17.123][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-31 20:15:17.124][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-31 20:15:17.125][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-31 20:15:17.126][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-31 20:15:17.128][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-31 20:15:17.129][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-31 20:15:17.130][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-31 20:15:17.131][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-31 20:15:17.133][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-31 20:15:17.134][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-31 20:15:17.135][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-31 20:15:17.137][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-31 20:15:17.138][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-31 20:15:17.139][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-31 20:15:17.140][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-31 20:15:17.142][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-31 20:15:17.143][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-31 20:15:17.144][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-31 20:15:17.146][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-31 20:15:17.147][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-31 20:15:17.148][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-31 20:15:17.149][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-31 20:15:17.151][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-31 20:15:17.152][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-31 20:15:17.153][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-31 20:15:17.155][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-31 20:15:17.156][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-31 20:15:17.157][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-31 20:15:17.159][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-31 20:15:17.160][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-31 20:15:17.161][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.162][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.228][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[2025-03-31 20:15:17.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-31 20:15:17.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-31 20:15:17.269][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-31 20:15:17.270][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-31 20:15:17.272][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:17.273][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-31 20:15:17.274][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:17.275][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-31 20:15:17.276][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:17.277][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-31 20:15:17.278][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:17.279][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-31 20:15:17.280][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-31 20:15:17.281][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-31 20:15:17.282][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:17.283][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-31 20:15:17.284][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-31 20:15:17.285][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-31 20:15:17.285][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-31 20:15:17.285][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-31 20:15:17.285][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-31 20:15:17.285][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-31 20:15:17.285][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-31 20:15:17.285][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-31 20:15:17.285][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-31 20:15:17.285][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-31 20:15:17.285][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-31 20:15:17.285][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-31 20:15:17.286][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-31 20:15:17.287][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-31 20:15:17.287][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-31 20:15:17.287][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-31 20:15:17.288][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-31 20:15:17.289][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:17.289][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:17.290][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-31 20:15:17.291][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-31 20:15:17.292][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-31 20:15:17.293][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-31 20:15:17.294][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-31 20:15:17.294][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-31 20:15:17.295][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-31 20:15:17.296][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-31 20:15:17.297][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-31 20:15:17.298][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-31 20:15:17.298][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-31 20:15:17.299][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-31 20:15:17.301][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-31 20:15:17.302][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-31 20:15:17.303][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-31 20:15:17.305][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-31 20:15:17.306][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-31 20:15:17.309][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-31 20:15:17.310][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-31 20:15:17.311][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-31 20:15:17.313][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-31 20:15:17.314][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-31 20:15:17.315][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-31 20:15:17.316][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-31 20:15:17.317][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-31 20:15:17.318][biodb::testThat]
biodb.INFO [2025-03-31 20:15:17.319][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-03-31 20:15:17.320][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-31 20:15:17.321][biodb::testThat]
biodb.DEBUG[2025-03-31 20:15:17.324][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-31 20:15:17.327][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:17.328][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-31 20:15:17.329][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:17.331][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-31 20:15:17.334][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[2025-03-31 20:15:17.337][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-31 20:15:17.338][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-31 20:15:17.339][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:17.340][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-03-31 20:15:17.344][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-03-31 20:15:17.345][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-31 20:15:17.346][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-03-31 20:15:17.347][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-31 20:15:17.350][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2025-03-31 20:15:17.351][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-31 20:15:17.352][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-31 20:15:17.353][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-31 20:15:17.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-31 20:15:17.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-31 20:15:17.367][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:17.368][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:17.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.370][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:17.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:17.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.375][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:17.376][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:17.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.378][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.379][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-31 20:15:17.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-31 20:15:17.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.383][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:17.384][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:17.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.386][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.387][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-31 20:15:17.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-31 20:15:17.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.391][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-31 20:15:17.392][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-31 20:15:17.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.394][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-31 20:15:17.396][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-31 20:15:17.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.398][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.403][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:17.404][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:17.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.406][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.407][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:17.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-31 20:15:17.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.411][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:17.412][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:17.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.413][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.415][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-31 20:15:17.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-31 20:15:17.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.418][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:17.419][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:17.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.421][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:17.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-31 20:15:17.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.426][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:17.427][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:17.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.428][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.430][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-31 20:15:17.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-31 20:15:17.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.434][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:17.435][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:17.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.436][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.438][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-31 20:15:17.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-31 20:15:17.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.441][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:17.442][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:17.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.444][ef$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.445][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-31 20:15:17.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-31 20:15:17.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:17.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:17.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:17.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:17.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:17.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:17.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-31 20:15:17.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-31 20:15:17.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:17.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:17.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:17.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:17.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:17.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:17.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:17.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:17.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:17.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:17.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-31 20:15:17.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-31 20:15:17.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-31 20:15:17.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-31 20:15:17.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-31 20:15:17.485][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-03-31 20:15:17.488][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-31 20:15:17.489][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-31 20:15:17.490][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-31 20:15:17.491][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-31 20:15:17.492][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-31 20:15:17.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-31 20:15:17.493][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-31 20:15:17.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-31 20:15:17.495][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-31 20:15:17.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 358 ]
>
> proc.time()
user system elapsed
14.668 0.549 17.524
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 0.903 | 0.095 | 1.812 | |
| ChebiEntry | 0.139 | 0.009 | 0.156 | |