Pierrick Roger
| Snapshot Date: 2025-03-17 13:00 -0400 (Mon, 17 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 2025-03-20 12:11 -0400 (Thu, 20 Mar 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" | 4756 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.3 (2025-02-28 ucrt) -- "Trophy Case" | 4487 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4514 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4441 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4406 |
| 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: biodbChebi |
| Version: 1.12.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbChebi_1.12.0.tar.gz |
| StartedAt: 2025-03-18 05:33:58 -0000 (Tue, 18 Mar 2025) |
| EndedAt: 2025-03-18 05:49:00 -0000 (Tue, 18 Mar 2025) |
| EllapsedTime: 902.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbChebi_1.12.0.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: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.12.0’
* 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 running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.3/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: aarch64-unknown-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-03-18 05:48:09.724][biodb::testContext]
biodb.INFO [2025-03-18 05:48:09.727][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 05:48:09.728][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-18 05:48:09.730][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 05:48:09.732][biodb::testContext]
biodb.INFO [2025-03-18 05:48:09.741][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-18 05:48:09.744][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-18 05:48:09.753][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:09.755][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-18 05:48:09.756][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-18 05:48:09.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.762][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-18 05:48:09.790][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-18 05:48:09.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.796][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-18 05:48:09.797][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-18 05:48:09.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.802][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-18 05:48:09.804][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-18 05:48:09.806][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-18 05:48:09.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.811][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-18 05:48:09.813][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-18 05:48:09.814][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-18 05:48:09.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.820][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-18 05:48:09.822][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-18 05:48:09.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.826][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[2025-03-18 05:48:09.828][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-18 05:48:09.829][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-18 05:48:09.831][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-18 05:48:09.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.837][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-18 05:48:09.839][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-18 05:48:09.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.843][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[2025-03-18 05:48:09.845][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-18 05:48:09.846][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-18 05:48:09.848][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-18 05:48:09.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.855][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-18 05:48:09.857][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-18 05:48:09.858][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-18 05:48:09.860][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-18 05:48:09.862][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-18 05:48:09.864][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-18 05:48:09.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.870][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-18 05:48:09.871][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-18 05:48:09.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.877][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-18 05:48:09.879][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-18 05:48:09.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.884][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[2025-03-18 05:48:09.885][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-18 05:48:09.887][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-18 05:48:09.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.893][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-18 05:48:09.895][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-18 05:48:09.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.902][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-18 05:48:09.904][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-18 05:48:09.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.910][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-18 05:48:09.912][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-18 05:48:09.918][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-18 05:48:09.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.924][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-18 05:48:09.925][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-18 05:48:09.927][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-18 05:48:09.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:09.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:09.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:09.936][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-18 05:48:09.988][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.022][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-18 05:48:10.024][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.025][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:10.027][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.028][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.029][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.031][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.032][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 05:48:10.034][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:10.035][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.036][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-18 05:48:10.038][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:10.039][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.040][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.042][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:10.042][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:10.042][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:10.042][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 05:48:10.042][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 05:48:10.043][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:10.045][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:10.046][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:10.047][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:10.049][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:10.050][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:10.051][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.053][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.054][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:10.055][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:10.057][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.058][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.060][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-18 05:48:10.062][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.064][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 05:48:10.065][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.067][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:10.068][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.070][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.071][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.072][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.074][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 05:48:10.075][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:10.077][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.078][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-18 05:48:10.079][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:10.081][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.082][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.084][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:10.084][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:10.084][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:10.084][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 05:48:10.084][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 05:48:10.085][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:10.087][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:10.088][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:10.089][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:10.091][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:10.092][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:10.093][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.095][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.096][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:10.097][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:10.099][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.100][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.102][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-18 05:48:10.104][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.106][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-18 05:48:10.107][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.109][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:10.110][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.111][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.113][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.114][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.116][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 05:48:10.117][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:10.118][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.120][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-18 05:48:10.121][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:10.123][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.124][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.126][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.127][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:10.129][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:10.130][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:10.131][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:10.133][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:10.134][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:10.135][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.137][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.138][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:10.139][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:10.141][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.142][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.144][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-18 05:48:10.146][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.148][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 05:48:10.149][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.151][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:10.152][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.153][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.155][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.156][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.158][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 05:48:10.159][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:10.160][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.162][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-18 05:48:10.163][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:10.165][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.166][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.168][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.169][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:10.170][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:10.172][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:10.173][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:10.175][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:10.176][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:10.177][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.179][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.180][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:10.181][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:10.182][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.184][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:10.189][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:10.190][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.191][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[2025-03-18 05:48:10.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.198][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[2025-03-18 05:48:10.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.204][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[2025-03-18 05:48:10.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.236][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[2025-03-18 05:48:10.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.249][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[2025-03-18 05:48:10.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.256][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[2025-03-18 05:48:10.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.262][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[2025-03-18 05:48:10.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.275][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.DEBUG[2025-03-18 05:48:10.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.302][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-18 05:48:10.308][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-18 05:48:10.310][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-18 05:48:10.312][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-18 05:48:10.314][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-18 05:48:10.316][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-18 05:48:10.318][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-18 05:48:10.320][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-18 05:48:10.322][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-18 05:48:10.324][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-18 05:48:10.326][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 05:48:10.328][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-18 05:48:10.330][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-18 05:48:10.332][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-18 05:48:10.334][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-18 05:48:10.336][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-18 05:48:10.338][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-18 05:48:10.340][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-18 05:48:10.342][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-18 05:48:10.344][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-18 05:48:10.346][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-18 05:48:10.348][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-18 05:48:10.350][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-18 05:48:10.352][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-18 05:48:10.354][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-18 05:48:10.356][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-18 05:48:10.358][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-18 05:48:10.360][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-18 05:48:10.362][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-18 05:48:10.364][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-18 05:48:10.366][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-18 05:48:10.368][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-18 05:48:10.370][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-18 05:48:10.372][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-18 05:48:10.381][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-18 05:48:10.383][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-18 05:48:10.385][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-18 05:48:10.387][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-18 05:48:10.389][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-18 05:48:10.391][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-18 05:48:10.393][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-18 05:48:10.396][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-18 05:48:10.398][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-18 05:48:10.400][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-18 05:48:10.402][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-18 05:48:10.405][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-18 05:48:10.407][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-18 05:48:10.409][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-18 05:48:10.411][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-18 05:48:10.413][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-18 05:48:10.416][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-18 05:48:10.418][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-18 05:48:10.420][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-18 05:48:10.422][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-18 05:48:10.425][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-18 05:48:10.427][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-18 05:48:10.429][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-18 05:48:10.431][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-18 05:48:10.434][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-18 05:48:10.436][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-18 05:48:10.438][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-18 05:48:10.440][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-18 05:48:10.442][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-18 05:48:10.444][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-18 05:48:10.446][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-18 05:48:10.448][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-18 05:48:10.450][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-18 05:48:10.452][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-18 05:48:10.454][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-18 05:48:10.456][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-18 05:48:10.459][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-18 05:48:10.461][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-18 05:48:10.463][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-18 05:48:10.465][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-18 05:48:10.467][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-18 05:48:10.470][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-18 05:48:10.472][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-18 05:48:10.474][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-18 05:48:10.476][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-18 05:48:10.478][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-18 05:48:10.480][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-18 05:48:10.483][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-18 05:48:10.485][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-18 05:48:10.494][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-18 05:48:10.497][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-18 05:48:10.501][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:10.503][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.506][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.602][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[2025-03-18 05:48:10.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.646][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[2025-03-18 05:48:10.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:10.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:10.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.663][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.DEBUG[2025-03-18 05:48:10.666][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-18 05:48:10.679][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-18 05:48:10.682][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.684][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.685][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.687][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:10.688][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.690][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.691][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.693][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-18 05:48:10.694][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-18 05:48:10.696][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:10.697][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.698][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-18 05:48:10.700][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:10.701][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-18 05:48:10.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-18 05:48:10.701][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-18 05:48:10.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-18 05:48:10.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-18 05:48:10.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-18 05:48:10.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-18 05:48:10.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-18 05:48:10.701][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-18 05:48:10.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-18 05:48:10.701][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-18 05:48:10.703][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:10.704][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:10.704][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:10.704][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:10.706][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-18 05:48:10.707][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:10.708][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:10.710][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:10.711][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:10.712][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:10.714][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:10.715][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-18 05:48:10.715][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-18 05:48:10.716][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:10.718][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:10.719][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:10.721][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-18 05:48:10.721][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-18 05:48:10.729][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-18 05:48:10.732][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 05:48:10.734][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-18 05:48:10.736][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-18 05:48:10.738][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-18 05:48:10.740][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-18 05:48:10.778][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-18 05:48:10.779][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-18 05:48:10.785][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-18 05:48:10.790][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-18 05:48:10.796][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 05:48:10.797][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 05:48:10.799][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-18 05:48:10.801][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-18 05:48:10.813][biodb::testThat]
biodb.INFO [2025-03-18 05:48:10.814][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-03-18 05:48:10.816][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:10.817][biodb::testThat]
biodb.TRACE[2025-03-18 05:48:10.823][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.4.3/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-03-18 05:48:10.826][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:10.830][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:10.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:10.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:10.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:10.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:10.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:10.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:10.865][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[2025-03-18 05:48:10.877][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:10.879][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:10.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:10.882][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:10.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:10.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:10.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:10.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:10.907][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:10.909][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:10.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:10.912][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:10.951][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:10.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:10.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:10.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:10.957][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:10.959][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:10.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:10.962][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:10.963][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:10.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:10.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:10.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:10.969][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:10.971][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:10.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:10.973][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:10.975][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:10.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:10.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:10.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:10.981][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:10.982][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:10.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:10.985][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:10.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:10.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:10.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:10.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:10.992][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:10.994][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:10.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:10.997][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:10.998][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.004][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:11.006][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.009][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.011][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:11.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.017][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.018][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.021][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.030][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:11.031][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:11.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.034][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:11.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:11.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.043][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:11.045][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.047][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.049][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:11.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.056][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:11.057][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:11.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.060][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.062][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:11.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:11.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:11.191][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-03-18 05:48:11.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:11.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:11.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.200][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:11.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:11.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.248][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.268][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 05:48:11.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 05:48:11.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.274][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 05:48:11.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 05:48:11.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.281][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-18 05:48:11.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-18 05:48:11.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.287][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-18 05:48:11.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-18 05:48:11.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.434][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.435][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.438][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.501][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.505][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:11.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.523][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:11.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:11.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:11.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:11.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:11.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:11.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.540][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:11.542][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:11.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.544][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.546][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:11.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:11.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.562][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:11.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:11.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.568][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:11.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:11.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.573][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:11.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:11.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.579][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:11.580][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:11.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.583][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.584][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:11.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:11.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.617][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.618][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.621][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.654][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.656][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.658][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.676][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:11.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:11.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.681][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:11.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:11.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.687][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:11.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:11.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.693][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:11.694][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:11.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.697][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.698][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:11.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:11.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.714][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.720][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.726][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.731][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.733][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.736][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.737][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:11.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.754][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.761][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.767][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.772][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.774][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.777][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.778][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.795][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:11.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:11.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.808][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:11.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:11.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.814][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:11.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:11.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.820][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:11.821][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:11.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.824][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.826][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:11.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:11.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.843][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.855][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.862][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.864][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.867][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.885][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:11.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:11.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.891][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:11.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:11.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:11.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:11.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.902][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:11.904][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:11.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.906][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:11.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:11.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.924][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:11.925][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:11.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.928][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.934][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:11.936][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:11.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.938][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.945][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:11.947][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:11.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.949][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.956][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:11.957][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:11.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.960][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.967][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.968][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:11.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.971][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.977][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.979][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:11.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.981][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.988][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.989][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:11.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:11.992][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:11.998][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:11.999][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:12.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.002][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.008][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-18 05:48:12.010][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:12.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.012][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.018][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:12.020][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:12.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.023][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.029][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:12.030][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:12.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.033][ef$get] fields variable is a list.
biodb.INFO [2025-03-18 05:48:12.043][biodb::testThat]
biodb.INFO [2025-03-18 05:48:12.044][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-18 05:48:12.046][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:12.047][biodb::testThat]
biodb.DEBUG[2025-03-18 05:48:12.066][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-03-18 05:48:12.075][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:12.080][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-03-18 05:48:12.082][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:12.084][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-03-18 05:48:12.085][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:12.127][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:12.128][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:12.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:12.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:12.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:12.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:12.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:12.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:12.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:12.146][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:12.147][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:12.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.150][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:12.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:12.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.181][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:12.182][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:12.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.185][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.187][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:12.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:12.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.192][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:12.193][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:12.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.196][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.198][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:12.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:12.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.203][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:12.205][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:12.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.207][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:12.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:12.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.214][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.216][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.218][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.226][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:12.227][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:12.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.230][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.231][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:12.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:12.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.237][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:12.238][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.241][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.243][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:12.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.248][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:12.250][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:12.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.252][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:12.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:12.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.260][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:12.261][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:12.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.264][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:12.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:12.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.271][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:12.273][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:12.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.276][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.277][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:12.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:12.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.283][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:12.285][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:12.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.288][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.290][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:12.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:12.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:12.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:12.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:12.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:12.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:12.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:12.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:12.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:12.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:12.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:12.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:12.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:12.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:12.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:12.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:12.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:12.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:12.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:12.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:12.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:12.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:12.351][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-03-18 05:48:12.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-18 05:48:12.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-18 05:48:12.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-18 05:48:12.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-18 05:48:12.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-18 05:48:12.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-18 05:48:12.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-18 05:48:12.379][biodb::testThat]
biodb.INFO [2025-03-18 05:48:12.381][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-18 05:48:12.382][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:12.383][biodb::testThat]
biodb.TRACE[2025-03-18 05:48:12.387][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:12.389][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:12.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.391][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:12.393][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-03-18 05:48:12.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:12.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:12.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:12.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:12.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.446][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:12.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:12.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:12.455][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-03-18 05:48:12.460][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-18 05:48:12.490][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:12.513][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-18 05:48:12.515][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:12.517][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-18 05:48:12.555][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[2025-03-18 05:48:12.559][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:12.562][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-18 05:48:12.563][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:12.566][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-18 05:48:12.568][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-03-18 05:48:12.584][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:12.586][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:12.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.588][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.590][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.591][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.594][ef$get] fields variable is a list.
biodb.INFO [2025-03-18 05:48:12.599][biodb::testThat]
biodb.INFO [2025-03-18 05:48:12.601][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-03-18 05:48:12.602][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:12.603][biodb::testThat]
biodb.TRACE[2025-03-18 05:48:12.638][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:12.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:12.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.644][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:12.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:12.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.650][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:12.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:12.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:12.742][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[2025-03-18 05:48:12.746][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:12.749][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-18 05:48:12.750][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:12.752][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-03-18 05:48:12.772][biodb::testThat]
biodb.INFO [2025-03-18 05:48:12.774][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-03-18 05:48:12.775][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:12.776][biodb::testThat]
biodb.TRACE[2025-03-18 05:48:12.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:12.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:12.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.809][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:12.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:12.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.814][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.820][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.836][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 05:48:12.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 05:48:12.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.841][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 05:48:12.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 05:48:12.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.847][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-18 05:48:12.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-18 05:48:12.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.852][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-18 05:48:12.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-18 05:48:12.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.882][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:12.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:12.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:12.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:12.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.899][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:12.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:12.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.915][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 05:48:12.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 05:48:12.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.920][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-18 05:48:12.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-18 05:48:12.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.926][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-18 05:48:12.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-18 05:48:12.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:12.931][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-18 05:48:12.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-18 05:48:12.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:12.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-18 05:48:12.944][biodb::testThat]
biodb.INFO [2025-03-18 05:48:12.945][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-18 05:48:12.946][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:12.948][biodb::testThat]
biodb.INFO [2025-03-18 05:48:12.959][biodb::testThat]
biodb.INFO [2025-03-18 05:48:12.960][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-18 05:48:12.961][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:12.963][biodb::testThat]
biodb.INFO [2025-03-18 05:48:12.974][biodb::testThat]
biodb.INFO [2025-03-18 05:48:12.975][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-18 05:48:12.976][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:12.978][biodb::testThat]
biodb.DEBUG[2025-03-18 05:48:12.983][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-03-18 05:48:14.575][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-03-18 05:48:15.970][biodb::testThat]
biodb.INFO [2025-03-18 05:48:15.971][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-18 05:48:15.973][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:15.974][biodb::testThat]
biodb.DEBUG[2025-03-18 05:48:16.759][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[2025-03-18 05:48:17.507][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:17.510][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:17.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:17.513][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:17.515][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:17.517][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:17.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:17.521][ef$get] fields variable is a list.
biodb.INFO [2025-03-18 05:48:17.524][biodb::testThat]
biodb.INFO [2025-03-18 05:48:17.526][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-03-18 05:48:17.528][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:17.530][biodb::testThat]
biodb.TRACE[2025-03-18 05:48:17.549][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:17.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:17.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:17.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:17.557][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:17.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:17.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:17.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:17.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:17.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:17.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:17.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:17.726][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[2025-03-18 05:48:17.731][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:17.733][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-18 05:48:17.735][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:17.737][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-18 05:48:17.838][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[2025-03-18 05:48:17.846][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:17.849][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-18 05:48:17.851][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:17.854][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-03-18 05:48:17.882][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 05:48:17.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 05:48:17.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:17.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:17.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:17.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:17.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:17.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:17.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:17.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:17.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:17.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:17.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:17.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:17.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:17.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:17.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:17.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:17.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:17.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:17.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:17.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:17.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:17.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:17.948][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[2025-03-18 05:48:17.954][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:17.956][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-18 05:48:17.958][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:17.961][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-18 05:48:17.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:17.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:17.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:17.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:17.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:17.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:18.001][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[2025-03-18 05:48:18.003][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-03-18 05:48:18.080][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:18.083][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-03-18 05:48:18.085][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:18.088][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2025-03-18 05:48:18.090][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:18.092][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:18.094][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:18.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:18.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:18.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:18.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:18.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:18.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:18.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:18.113][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.115][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.118][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.126][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:18.128][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:18.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.131][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.132][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:18.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:18.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.139][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:18.140][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:18.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.144][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.147][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:18.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:18.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.154][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:18.155][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:18.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.158][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:18.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:18.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.166][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:18.168][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:18.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.171][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.172][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:18.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:18.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.178][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:18.180][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:18.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.183][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.184][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:18.186][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.189][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.190][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:18.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.196][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:18.198][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:18.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.201][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:18.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:18.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.209][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:18.211][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:18.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.213][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.216][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:18.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:18.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.222][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:18.223][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:18.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.226][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.228][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:18.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:18.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.234][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:18.236][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:18.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.239][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.241][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:18.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:18.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:18.311][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-03-18 05:48:18.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:18.343][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[2025-03-18 05:48:18.347][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:18.349][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-18 05:48:18.351][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:18.353][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-18 05:48:18.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:18.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:18.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:18.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:18.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:18.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:18.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:18.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:18.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:18.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:18.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:18.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:18.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:18.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:18.421][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[2025-03-18 05:48:18.423][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-03-18 05:48:18.424][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:18.426][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-03-18 05:48:18.428][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:18.431][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2025-03-18 05:48:18.432][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:18.434][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:18.435][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:18.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:18.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:18.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:18.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:18.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:18.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:18.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:18.453][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.455][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.457][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.465][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:18.466][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:18.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.469][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.470][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:18.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:18.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.476][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:18.477][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:18.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.480][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.482][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:18.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:18.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.488][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:18.489][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:18.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.492][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:18.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:18.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.499][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:18.501][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:18.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.511][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:18.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:18.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.518][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:18.520][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:18.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.522][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.524][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:18.526][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.528][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.530][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:18.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.536][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:18.537][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:18.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.540][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:18.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:18.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.547][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:18.549][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:18.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.552][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.554][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:18.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:18.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.559][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:18.561][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:18.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.564][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.565][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:18.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:18.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.571][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:18.572][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:18.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.575][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.577][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:18.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:18.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:18.638][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-03-18 05:48:18.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:18.679][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[2025-03-18 05:48:18.684][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:18.686][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-18 05:48:18.687][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:18.689][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-18 05:48:18.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:18.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:18.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:18.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:18.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:18.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:18.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:18.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:18.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:18.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:18.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:18.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:18.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:18.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:18.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:18.738][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-03-18 05:48:18.739][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:18.741][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-03-18 05:48:18.743][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:18.746][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-03-18 05:48:18.747][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:18.749][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:18.751][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:18.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:18.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:18.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:18.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:18.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:18.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:18.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:18.776][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.777][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.780][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.787][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:18.789][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:18.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.791][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.793][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:18.795][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:18.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.797][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.799][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:18.801][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:18.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.803][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.805][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:18.806][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:18.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.809][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.811][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:18.812][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:18.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.815][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.816][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:18.818][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.820][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.822][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:18.824][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:18.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.826][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.828][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:18.829][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:18.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.832][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.834][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:18.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:18.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.839][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:18.841][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:18.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.843][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.845][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:18.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:18.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.851][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:18.852][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:18.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.855][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:18.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:18.912][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-03-18 05:48:18.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:18.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:18.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:18.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:18.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:18.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:18.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:18.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:18.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:18.956][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-03-18 05:48:18.957][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:18.959][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-03-18 05:48:18.961][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:18.964][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-03-18 05:48:18.965][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:18.967][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:18.968][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:18.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:18.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:18.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:18.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:18.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:18.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:18.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:18.986][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.988][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.990][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:18.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:18.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:18.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:18.998][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:19.000][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:19.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.002][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.004][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:19.012][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:19.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.016][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.018][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:19.019][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:19.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.022][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.024][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.025][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.028][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.029][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.031][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.034][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.035][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:19.037][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.039][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.041][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.043][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.045][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.047][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:19.048][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:19.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.051][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.053][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:19.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:19.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.059][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:19.060][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:19.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.063][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.065][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:19.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:19.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.071][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:19.072][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:19.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.075][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:19.132][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-03-18 05:48:19.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:19.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:19.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:19.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:19.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:19.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:19.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:19.174][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[2025-03-18 05:48:19.175][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-03-18 05:48:19.177][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:19.179][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-03-18 05:48:19.181][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:19.183][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-03-18 05:48:19.185][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:19.186][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:19.188][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:19.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:19.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:19.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:19.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:19.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:19.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:19.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:19.206][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.208][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.210][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.217][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:19.219][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:19.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.222][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.223][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:19.225][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:19.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.227][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.229][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:19.231][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:19.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.234][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.235][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.237][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.239][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.241][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.243][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.245][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.247][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:19.248][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.251][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.253][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.254][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.264][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.266][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:19.267][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:19.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.270][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.272][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:19.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:19.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.278][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:19.279][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:19.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.282][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.284][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:19.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:19.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.289][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:19.291][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:19.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.293][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:19.349][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-03-18 05:48:19.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:19.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:19.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:19.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:19.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:19.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:19.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:19.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:19.392][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-03-18 05:48:19.394][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:19.396][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-03-18 05:48:19.398][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:19.400][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-03-18 05:48:19.402][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:19.404][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:19.405][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:19.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:19.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:19.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:19.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:19.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:19.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:19.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:19.424][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.425][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.428][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.435][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:19.436][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:19.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.439][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.440][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:19.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:19.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.446][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:19.448][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:19.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.450][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.452][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:19.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:19.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.458][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:19.459][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:19.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.462][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:19.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:19.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.469][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.470][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.473][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.480][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.482][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.484][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.486][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.492][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:19.493][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.496][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.497][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:19.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.503][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.512][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.514][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.522][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:19.523][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:19.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.526][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.528][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:19.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:19.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.534][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:19.535][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:19.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.538][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.539][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:19.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:19.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.545][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:19.547][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:19.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.549][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.551][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:19.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:19.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:19.612][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-03-18 05:48:19.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:19.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:19.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:19.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:19.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:19.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:19.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:19.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:19.644][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-03-18 05:48:19.646][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:19.648][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-03-18 05:48:19.649][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:19.652][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-03-18 05:48:19.654][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:19.655][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:19.657][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:19.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:19.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:19.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:19.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:19.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:19.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:19.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:19.675][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.677][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.680][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.687][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:19.688][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:19.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.691][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.693][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:19.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:19.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.698][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:19.700][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:19.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.703][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.705][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:19.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:19.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.711][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:19.712][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:19.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.715][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:19.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:19.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.723][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.724][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.727][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.729][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.735][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.736][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.739][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.741][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.746][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:19.748][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.751][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.752][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:19.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.765][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.766][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.769][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:19.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.776][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:19.778][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:19.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.780][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:19.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:19.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.788][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:19.789][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:19.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.792][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.794][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:19.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:19.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.799][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:19.801][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:19.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.803][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.805][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:19.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:19.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:19.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:19.866][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-03-18 05:48:19.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:19.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:19.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:19.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:19.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:19.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:19.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:19.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:19.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:19.898][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-03-18 05:48:19.899][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:19.902][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-03-18 05:48:19.903][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:19.906][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-03-18 05:48:19.907][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:19.909][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:19.910][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:19.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:19.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:19.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:19.921][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:19.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:19.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:19.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:19.928][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.930][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.932][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:19.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:19.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.940][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:19.941][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:19.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.944][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.946][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:19.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:19.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.951][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:19.953][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:19.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.955][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.957][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:19.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:19.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.963][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:19.964][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:19.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.967][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:19.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:19.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.974][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.976][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.985][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:19.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:19.993][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.995][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:19.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:19.998][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.000][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:20.001][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.004][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.006][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:20.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.028][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.030][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.033][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.040][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:20.042][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:20.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.045][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:20.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:20.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.053][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:20.054][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:20.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.057][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.059][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:20.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:20.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.065][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:20.066][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:20.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.069][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.071][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:20.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:20.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:20.135][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-03-18 05:48:20.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:20.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:20.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:20.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:20.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:20.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:20.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:20.168][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[2025-03-18 05:48:20.169][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-03-18 05:48:20.171][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:20.173][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-03-18 05:48:20.175][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:20.178][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-03-18 05:48:20.180][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:20.181][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:20.183][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:20.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:20.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:20.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:20.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:20.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:20.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:20.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:20.202][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.204][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.206][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.214][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:20.216][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:20.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.218][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.221][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:20.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:20.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.227][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:20.228][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:20.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.231][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:20.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:20.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.238][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:20.240][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:20.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.243][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.245][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:20.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:20.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.250][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.252][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.255][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.256][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.262][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:20.264][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:20.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.266][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.268][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:20.269][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.272][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.274][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:20.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.280][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.288][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.292][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.299][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:20.300][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:20.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.303][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.305][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:20.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:20.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.311][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:20.312][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:20.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.315][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.317][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:20.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:20.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.323][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:20.324][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:20.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.327][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.328][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:20.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:20.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:20.393][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-03-18 05:48:20.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:20.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:20.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:20.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:20.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:20.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:20.423][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:20.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:20.426][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-03-18 05:48:20.427][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:20.430][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-03-18 05:48:20.431][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:20.434][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-03-18 05:48:20.436][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:20.437][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:20.439][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:20.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:20.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:20.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:20.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:20.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:20.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:20.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:20.458][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.460][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.462][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.470][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:20.472][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:20.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.475][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.477][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:20.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:20.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.483][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:20.484][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:20.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.487][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.489][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:20.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:20.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.495][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:20.497][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:20.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.500][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:20.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:20.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.507][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.509][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.512][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.520][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:20.522][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:20.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.524][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.526][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:20.528][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.531][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.533][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:20.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.539][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.540][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.551][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.558][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:20.560][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:20.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.562][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:20.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:20.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.570][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:20.571][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:20.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.574][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.575][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:20.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:20.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.581][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:20.582][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:20.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.585][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.587][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:20.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:20.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:20.648][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-03-18 05:48:20.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:20.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:20.667][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:20.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:20.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:20.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:20.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:20.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:20.679][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-03-18 05:48:20.681][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:20.683][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-03-18 05:48:20.685][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:20.688][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-03-18 05:48:20.690][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:20.691][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:20.693][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:20.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:20.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:20.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:20.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:20.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:20.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:20.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:20.711][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.713][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.715][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.723][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:20.724][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:20.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.727][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.729][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:20.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:20.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.734][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:20.736][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:20.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.738][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.740][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:20.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:20.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.746][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:20.747][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:20.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.750][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:20.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:20.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.757][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.759][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.761][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:20.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.769][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:20.770][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:20.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.773][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.774][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:20.776][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.779][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.780][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:20.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.786][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.788][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.790][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:20.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.805][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:20.806][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:20.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.809][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.810][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:20.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:20.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.816][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:20.818][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:20.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.820][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.822][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:20.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:20.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.828][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:20.829][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:20.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.832][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.833][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:20.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:20.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:20.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:20.895][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-03-18 05:48:20.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.902][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:20.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:20.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:20.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:20.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:20.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:20.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:20.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:20.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:20.927][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-03-18 05:48:20.928][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:20.931][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-03-18 05:48:20.932][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:20.935][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-03-18 05:48:20.936][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:20.938][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:20.940][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:20.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:20.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:20.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:20.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:20.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:20.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:20.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:20.957][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.959][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.961][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:20.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:20.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.969][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:20.970][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:20.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.973][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.975][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:20.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:20.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.981][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:20.982][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:20.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.985][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.987][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:20.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:20.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.992][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:20.994][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:20.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:20.996][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:20.998][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:21.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:21.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.004][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.005][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.008][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.016][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:21.017][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:21.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.020][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.021][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:21.023][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.026][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.027][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:21.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.033][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.035][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.037][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.052][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:21.054][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:21.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.056][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:21.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:21.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.064][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:21.066][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:21.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.068][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.070][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:21.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:21.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.076][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:21.077][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:21.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.080][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.081][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:21.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:21.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:21.143][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-03-18 05:48:21.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:21.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:21.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:21.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:21.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:21.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:21.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:21.174][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[2025-03-18 05:48:21.176][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-03-18 05:48:21.177][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:21.179][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-03-18 05:48:21.181][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:21.184][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-03-18 05:48:21.185][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:21.187][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:21.189][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:21.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:21.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:21.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:21.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:21.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:21.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:21.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:21.207][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.208][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.211][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.218][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:21.220][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:21.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.222][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.224][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:21.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:21.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.230][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:21.232][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:21.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.234][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.236][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:21.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:21.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.242][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:21.244][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:21.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.247][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.248][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.250][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.253][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.255][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:21.256][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:21.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.259][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.261][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:21.263][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.265][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.267][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:21.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.274][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.275][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.278][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.285][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:21.287][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:21.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.289][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.291][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:21.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:21.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.305][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:21.306][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:21.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.309][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.310][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:21.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:21.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.316][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:21.318][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:21.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.321][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:21.383][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-03-18 05:48:21.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:21.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:21.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:21.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:21.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:21.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:21.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:21.415][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[2025-03-18 05:48:21.416][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-03-18 05:48:21.418][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:21.420][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-03-18 05:48:21.422][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:21.424][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-03-18 05:48:21.426][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:21.428][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:21.429][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:21.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:21.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:21.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:21.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:21.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:21.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:21.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:21.447][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.449][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.451][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.458][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:21.460][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:21.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.463][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.464][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:21.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:21.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.470][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:21.471][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:21.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.474][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.476][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:21.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:21.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.481][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:21.483][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:21.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.485][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.487][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.489][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.491][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.493][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:21.495][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:21.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.498][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.500][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:21.501][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.504][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.506][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:21.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.512][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.514][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.517][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.525][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:21.527][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:21.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.530][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.532][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:21.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:21.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.539][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:21.541][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:21.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.544][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.545][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:21.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:21.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.553][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:21.586][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:21.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.589][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:21.646][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-03-18 05:48:21.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:21.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:21.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:21.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:21.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:21.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:21.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:21.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:21.677][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-03-18 05:48:21.679][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:21.681][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-03-18 05:48:21.683][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:21.685][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-03-18 05:48:21.687][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:21.689][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:21.690][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:21.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:21.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:21.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:21.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:21.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:21.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:21.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:21.709][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.710][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.713][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.720][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:21.722][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:21.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.724][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.726][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:21.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:21.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.732][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:21.733][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:21.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.736][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.738][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:21.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:21.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.743][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:21.745][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:21.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.748][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:21.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:21.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.755][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.757][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.759][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:21.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.767][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:21.768][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:21.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.771][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.772][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:21.774][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.776][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.778][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:21.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.784][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.785][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.788][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:21.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.795][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:21.796][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:21.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.799][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.801][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:21.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:21.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.806][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:21.807][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:21.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.810][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.812][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:21.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:21.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.817][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:21.818][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:21.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.821][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.823][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:21.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:21.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:21.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:21.891][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-03-18 05:48:21.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:21.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:21.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:21.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:21.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:21.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:21.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:21.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:21.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:21.923][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-03-18 05:48:21.924][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:21.927][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-03-18 05:48:21.928][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:21.931][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-03-18 05:48:21.932][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:21.934][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:21.936][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:21.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:21.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:21.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:21.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:21.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:21.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:21.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:21.953][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.955][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.958][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:21.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:21.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.965][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:21.966][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:21.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.969][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.971][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:21.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:21.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.976][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:21.978][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:21.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.980][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:21.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:21.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.987][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:21.989][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:21.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.991][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:21.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:21.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:21.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:21.999][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.000][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.003][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.010][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:22.011][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:22.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.014][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.016][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:22.017][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.020][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.021][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:22.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.027][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.029][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.031][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.039][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:22.040][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:22.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.043][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.045][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:22.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:22.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.050][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:22.052][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:22.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.055][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.056][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:22.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:22.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.062][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:22.063][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:22.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.066][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.068][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:22.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:22.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:22.137][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-03-18 05:48:22.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:22.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:22.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:22.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:22.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:22.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:22.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:22.168][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[2025-03-18 05:48:22.169][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-03-18 05:48:22.171][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:22.173][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-03-18 05:48:22.175][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:22.178][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-03-18 05:48:22.179][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:22.181][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:22.182][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:22.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:22.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:22.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:22.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:22.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:22.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:22.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:22.200][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.202][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.204][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.212][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:22.213][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:22.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.216][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.218][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:22.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:22.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.223][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:22.225][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:22.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.227][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.229][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:22.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:22.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.235][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:22.236][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:22.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.239][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:22.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:22.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.247][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.248][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.251][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.258][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:22.260][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:22.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.263][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.264][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:22.266][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.269][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.271][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:22.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.276][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.278][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.281][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.288][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:22.290][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:22.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.293][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.295][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:22.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:22.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.300][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:22.302][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:22.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.305][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.307][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:22.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:22.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.312][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:22.314][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:22.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.316][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.318][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:22.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:22.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:22.388][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-03-18 05:48:22.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:22.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:22.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:22.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:22.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:22.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:22.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:22.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:22.421][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-03-18 05:48:22.423][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:22.425][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-03-18 05:48:22.427][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:22.429][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-03-18 05:48:22.431][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:22.433][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:22.434][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:22.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:22.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:22.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:22.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:22.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:22.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:22.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:22.453][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.454][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.457][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.464][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:22.466][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:22.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.468][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.470][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:22.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:22.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.476][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:22.477][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:22.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.480][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.482][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:22.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:22.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.488][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:22.489][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:22.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.492][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:22.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:22.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.499][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.501][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.503][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.511][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:22.512][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:22.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.515][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.517][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:22.518][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.521][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.523][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:22.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.528][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.530][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.532][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.540][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:22.541][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:22.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.544][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.546][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:22.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:22.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.552][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:22.553][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:22.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.556][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.557][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:22.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:22.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.563][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:22.565][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:22.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.567][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.569][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:22.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:22.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:22.637][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-03-18 05:48:22.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:22.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:22.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:22.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:22.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:22.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:22.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:22.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:22.669][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-03-18 05:48:22.671][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:22.673][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-03-18 05:48:22.675][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:22.678][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-03-18 05:48:22.679][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:22.681][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:22.682][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:22.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:22.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:22.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:22.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:22.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:22.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:22.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:22.701][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.702][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.705][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.712][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:22.714][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:22.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.716][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.718][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:22.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:22.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.724][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:22.725][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:22.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.728][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.730][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:22.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:22.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.736][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:22.737][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:22.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.740][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.742][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:22.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:22.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.748][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.749][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.752][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.754][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:22.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.760][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:22.761][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:22.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.764][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.765][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:22.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.770][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.771][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:22.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.777][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.779][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.781][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:22.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.789][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:22.790][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:22.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.793][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.795][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:22.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:22.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.801][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:22.802][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:22.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.805][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.807][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:22.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:22.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.812][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:22.814][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:22.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.816][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.818][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:22.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:22.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:22.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:22.888][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-03-18 05:48:22.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:22.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:22.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:22.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:22.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:22.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:22.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:22.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:22.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:22.921][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-03-18 05:48:22.922][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:22.925][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-03-18 05:48:22.926][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:22.929][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-03-18 05:48:22.930][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:22.932][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:22.934][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:22.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:22.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:22.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:22.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:22.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:22.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:22.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:22.952][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.954][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.956][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:22.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:22.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.964][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:22.965][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:22.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.968][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.970][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:22.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:22.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.976][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:22.977][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:22.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.980][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:22.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:22.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.988][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:22.989][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:22.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.992][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:22.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:22.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:22.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:22.999][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:23.001][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:23.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.003][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:23.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:23.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.011][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:23.012][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:23.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.015][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.017][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:23.019][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.021][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.023][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:23.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.029][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:23.030][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:23.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.033][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:23.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:23.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.041][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:23.042][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:23.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.045][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:23.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:23.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.053][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:23.054][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:23.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.057][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.059][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:23.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:23.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.065][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:23.066][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:23.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.069][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.071][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:23.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:23.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.143][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-03-18 05:48:23.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.174][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[2025-03-18 05:48:23.176][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-03-18 05:48:23.177][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:23.180][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-03-18 05:48:23.181][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:23.184][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-03-18 05:48:23.186][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:23.188][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:23.189][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:23.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.209][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.210][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.213][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.220][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:23.222][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:23.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.225][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.227][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:23.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:23.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.232][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:23.234][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:23.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.236][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.239][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:23.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:23.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.244][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:23.246][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:23.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.249][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:23.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:23.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.256][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:23.258][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:23.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.260][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.262][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:23.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:23.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.268][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:23.269][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:23.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.272][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.274][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:23.276][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.278][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.280][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:23.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.286][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:23.287][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:23.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.290][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:23.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:23.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.297][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:23.299][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:23.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.302][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.304][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:23.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:23.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.309][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:23.311][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:23.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.314][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.315][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:23.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:23.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.321][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:23.323][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:23.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.325][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.327][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:23.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:23.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:23.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:23.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:23.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.398][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-03-18 05:48:23.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.441][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[2025-03-18 05:48:23.445][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:23.447][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-18 05:48:23.449][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:23.451][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-18 05:48:23.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.468][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[2025-03-18 05:48:23.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.635][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[2025-03-18 05:48:23.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:23.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:23.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:23.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:23.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:23.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:23.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:23.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:23.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:23.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:23.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:23.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:24.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:24.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:24.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:24.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:24.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:24.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:24.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:24.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:24.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:24.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:24.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:24.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:24.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:24.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:24.046][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.TRACE[2025-03-18 05:48:24.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:24.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:24.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:24.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:24.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:24.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:24.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:24.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:24.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:24.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:24.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:24.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:24.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:24.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:24.111][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:24.112][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.TRACE[2025-03-18 05:48:24.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:24.248][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[2025-03-18 05:48:24.256][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:24.259][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-03-18 05:48:24.261][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:24.264][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-03-18 05:48:24.269][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[2025-03-18 05:48:24.274][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:24.277][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-03-18 05:48:24.279][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:24.282][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-03-18 05:48:24.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:24.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:24.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:24.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:24.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:24.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:24.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:24.302][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-03-18 05:48:24.304][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:24.307][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-03-18 05:48:24.309][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:24.312][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-03-18 05:48:24.313][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:24.315][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:24.317][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:24.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:24.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:24.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:24.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:24.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:24.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:24.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:24.339][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.341][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.344][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.353][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:24.354][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:24.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.358][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.360][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:24.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:24.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.366][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:24.368][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:24.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.371][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.374][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:24.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:24.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.380][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:24.382][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:24.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.385][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.387][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:24.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:24.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.394][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:24.395][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:24.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.399][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:24.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:24.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.407][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:24.409][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:24.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.412][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.427][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:24.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:24.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.435][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:24.436][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.440][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.442][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:24.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.448][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.450][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.453][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.462][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:24.463][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:24.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.466][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.469][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:24.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:24.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.475][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:24.477][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:24.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.479][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.481][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:24.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:24.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.488][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:24.489][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:24.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.492][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.494][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:24.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:24.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:24.560][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-03-18 05:48:24.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:24.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:24.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:24.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:24.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:24.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:24.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:24.594][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[2025-03-18 05:48:24.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:24.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:24.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:24.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:24.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:24.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:24.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:24.628][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[2025-03-18 05:48:24.630][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-03-18 05:48:24.632][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:24.634][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-03-18 05:48:24.636][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:24.639][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-03-18 05:48:24.641][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:24.643][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:24.645][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:24.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:24.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:24.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:24.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:24.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:24.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:24.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:24.665][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.667][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.670][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.678][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:24.680][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:24.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.683][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.685][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:24.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:24.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.691][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:24.693][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:24.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.696][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.706][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:24.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:24.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.713][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:24.714][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:24.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.717][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.719][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:24.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:24.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.725][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:24.727][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:24.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.730][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:24.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:24.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.738][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:24.739][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:24.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.742][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.744][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:24.746][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.749][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.751][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:24.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:24.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.757][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.759][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.762][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.770][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:24.771][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:24.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.774][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:24.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:24.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.783][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:24.784][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:24.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.787][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.789][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:24.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:24.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.795][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:24.797][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:24.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.800][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.802][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:24.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:24.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:24.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:24.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:24.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:24.869][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-03-18 05:48:24.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:24.913][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[2025-03-18 05:48:24.918][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:24.920][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-18 05:48:24.922][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:24.924][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-18 05:48:24.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:24.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:24.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:24.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:24.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:24.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:24.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:24.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:24.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:24.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:24.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:24.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:24.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:24.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:24.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:24.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:24.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:24.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:24.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.022][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[2025-03-18 05:48:25.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.204][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.TRACE[2025-03-18 05:48:25.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.335][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.TRACE[2025-03-18 05:48:25.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.396][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[2025-03-18 05:48:25.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.427][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.TRACE[2025-03-18 05:48:25.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.495][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.631][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[2025-03-18 05:48:25.636][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:25.638][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-18 05:48:25.639][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:25.641][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-18 05:48:25.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.727][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.883][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[2025-03-18 05:48:25.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.914][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[2025-03-18 05:48:25.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:25.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:25.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:25.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:25.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:25.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:25.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:25.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:25.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:25.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:25.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:25.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.015][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.TRACE[2025-03-18 05:48:26.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.046][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.TRACE[2025-03-18 05:48:26.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.077][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[2025-03-18 05:48:26.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.241][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[2025-03-18 05:48:26.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.342][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-18 05:48:26.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-18 05:48:26.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-18 05:48:26.358][biodb::testThat]
biodb.INFO [2025-03-18 05:48:26.359][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-03-18 05:48:26.360][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:26.362][biodb::testThat]
biodb.TRACE[2025-03-18 05:48:26.365][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 05:48:26.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 05:48:26.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:26.414][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[2025-03-18 05:48:26.418][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:26.420][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-18 05:48:26.422][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:26.424][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-18 05:48:26.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.480][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[2025-03-18 05:48:26.485][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:26.487][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-18 05:48:26.488][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:26.490][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-18 05:48:26.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:26.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.558][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-18 05:48:26.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.586][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.587][private$selectFields]
biodb.TRACE[2025-03-18 05:48:26.589][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:26.590][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:26.591][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.593][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.594][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.597][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.598][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.602][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.604][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.605][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.607][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.608][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.611][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.612][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:26.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.644][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-18 05:48:26.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.671][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.672][private$selectFields]
biodb.TRACE[2025-03-18 05:48:26.674][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:26.675][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:26.677][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.678][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.680][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.683][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.684][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.688][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.691][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.694][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.696][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.698][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:26.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.725][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-18 05:48:26.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.751][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.753][private$selectFields]
biodb.TRACE[2025-03-18 05:48:26.754][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:26.755][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:26.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.762][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.764][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.765][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.768][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.771][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:26.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.773][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.776][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.777][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:26.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:26.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.797][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-18 05:48:26.799][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-18 05:48:26.800][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-18 05:48:26.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:26.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:26.931][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[2025-03-18 05:48:26.948][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:26.951][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-18 05:48:26.953][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:26.956][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-18 05:48:26.960][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[2025-03-18 05:48:26.965][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:26.967][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-18 05:48:26.969][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:26.971][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-18 05:48:26.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:26.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:26.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:26.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:26.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:26.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:26.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:26.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:26.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:26.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:26.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:27.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:27.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:27.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.053][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[2025-03-18 05:48:27.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:27.106][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-18 05:48:27.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.156][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.TRACE[2025-03-18 05:48:27.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.168][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.169][private$selectFields]
biodb.TRACE[2025-03-18 05:48:27.171][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:27.172][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:27.173][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.176][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.179][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.180][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.192][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.194][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.195][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.197][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.198][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.201][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.202][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:27.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.221][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-18 05:48:27.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:27.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.297][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.299][private$selectFields]
biodb.TRACE[2025-03-18 05:48:27.300][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:27.301][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:27.303][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.304][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.306][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.308][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.310][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.311][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.314][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.315][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.330][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.332][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.333][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.336][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.337][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:27.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.356][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-18 05:48:27.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:27.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.383][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.384][private$selectFields]
biodb.TRACE[2025-03-18 05:48:27.386][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:27.387][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:27.388][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.390][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.391][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.394][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.395][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.397][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.399][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.401][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.402][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.403][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.405][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.407][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.409][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:27.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.435][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-18 05:48:27.436][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-18 05:48:27.438][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-18 05:48:27.449][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-18 05:48:27.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-18 05:48:27.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-18 05:48:27.459][biodb::testThat]
biodb.INFO [2025-03-18 05:48:27.461][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-03-18 05:48:27.462][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:27.463][biodb::testThat]
biodb.TRACE[2025-03-18 05:48:27.467][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 05:48:27.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 05:48:27.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:27.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:27.516][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[2025-03-18 05:48:27.521][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:27.523][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-18 05:48:27.525][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:27.526][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-18 05:48:27.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:27.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:27.561][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[2025-03-18 05:48:27.565][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:27.567][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-18 05:48:27.569][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:27.571][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-18 05:48:27.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:27.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:27.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:27.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:27.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:27.636][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-18 05:48:27.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:27.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.664][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.673][private$selectFields]
biodb.TRACE[2025-03-18 05:48:27.675][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:27.676][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:27.678][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.679][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.681][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.684][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.685][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.687][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.689][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.691][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.692][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.697][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.699][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:27.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.717][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-18 05:48:27.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:27.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.744][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.745][private$selectFields]
biodb.TRACE[2025-03-18 05:48:27.746][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:27.747][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:27.749][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.750][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.752][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.755][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.756][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.758][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.760][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.762][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.763][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.764][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.766][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.769][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.770][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:27.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.788][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-18 05:48:27.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.802][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.TRACE[2025-03-18 05:48:27.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.815][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.816][private$selectFields]
biodb.TRACE[2025-03-18 05:48:27.817][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:27.819][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:27.820][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.821][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.823][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.826][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.831][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.832][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.834][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:27.835][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.837][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.839][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.841][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:27.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:27.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.860][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-18 05:48:27.861][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-18 05:48:27.862][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-18 05:48:27.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:27.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:27.924][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[2025-03-18 05:48:27.929][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:27.931][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-18 05:48:27.932][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:27.934][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-18 05:48:27.939][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[2025-03-18 05:48:27.943][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:27.945][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-18 05:48:27.947][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:27.949][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-18 05:48:27.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:27.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:27.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:27.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:27.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:27.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:27.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:27.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:27.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:27.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:27.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:27.996][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.TRACE[2025-03-18 05:48:27.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:28.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.028][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.TRACE[2025-03-18 05:48:28.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:28.048][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-18 05:48:28.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.062][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[2025-03-18 05:48:28.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.075][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.077][private$selectFields]
biodb.TRACE[2025-03-18 05:48:28.078][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:28.079][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:28.081][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.082][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.084][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.086][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.088][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.089][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.092][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.094][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.095][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.096][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.098][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.101][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.102][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:28.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.121][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-18 05:48:28.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:28.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.148][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.149][private$selectFields]
biodb.TRACE[2025-03-18 05:48:28.151][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:28.152][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:28.153][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.159][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.161][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.162][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.173][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.175][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.177][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.178][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.179][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.182][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.184][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:28.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.202][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-18 05:48:28.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.216][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[2025-03-18 05:48:28.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.229][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.231][private$selectFields]
biodb.TRACE[2025-03-18 05:48:28.232][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:28.233][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:28.235][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.236][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.238][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.240][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.243][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.246][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.247][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.249][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.250][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.252][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.254][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.256][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:28.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.274][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-18 05:48:28.276][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-18 05:48:28.277][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-18 05:48:28.289][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-18 05:48:28.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-18 05:48:28.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-18 05:48:28.300][biodb::testThat]
biodb.INFO [2025-03-18 05:48:28.301][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-03-18 05:48:28.303][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:28.304][biodb::testThat]
biodb.TRACE[2025-03-18 05:48:28.308][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-18 05:48:28.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-18 05:48:28.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:28.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.354][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[2025-03-18 05:48:28.358][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[2025-03-18 05:48:28.363][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:28.365][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-18 05:48:28.366][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:28.368][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-18 05:48:28.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:28.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:28.404][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[2025-03-18 05:48:28.408][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:28.410][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-18 05:48:28.412][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:28.414][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-18 05:48:28.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:28.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:28.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:28.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:28.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:28.490][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-18 05:48:28.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:28.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.518][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.519][private$selectFields]
biodb.TRACE[2025-03-18 05:48:28.520][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:28.522][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:28.523][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.525][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.529][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.530][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.532][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.534][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.536][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.537][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.542][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.544][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:28.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.564][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-18 05:48:28.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:28.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.590][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.591][private$selectFields]
biodb.TRACE[2025-03-18 05:48:28.593][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:28.594][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:28.595][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.597][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.598][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.601][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.602][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.604][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.606][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.608][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.609][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.610][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.612][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.614][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.616][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:28.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.634][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-18 05:48:28.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:28.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.661][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.662][private$selectFields]
biodb.TRACE[2025-03-18 05:48:28.663][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:28.672][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:28.674][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.676][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.677][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.680][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.681][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.683][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.685][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.687][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.688][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.690][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.691][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.694][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.695][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:28.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.715][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-18 05:48:28.716][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-18 05:48:28.717][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-18 05:48:28.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:28.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:28.786][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[2025-03-18 05:48:28.790][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:28.792][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-18 05:48:28.794][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:28.795][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-18 05:48:28.799][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[2025-03-18 05:48:28.804][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:28.806][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-18 05:48:28.807][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:28.809][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-18 05:48:28.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:28.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:28.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.857][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.TRACE[2025-03-18 05:48:28.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:28.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:28.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:28.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:28.906][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-18 05:48:28.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:28.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:28.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.942][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.943][private$selectFields]
biodb.TRACE[2025-03-18 05:48:28.944][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:28.946][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:28.947][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.948][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.950][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.952][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.954][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.955][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.958][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.959][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.961][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:28.962][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.963][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.966][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.967][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:28.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:28.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:28.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:28.986][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-18 05:48:28.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:28.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:28.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:28.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:28.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:28.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:29.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:29.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.012][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:29.014][private$selectFields]
biodb.TRACE[2025-03-18 05:48:29.015][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:29.016][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:29.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:29.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.021][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.023][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.029][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.030][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:29.032][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:29.033][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.035][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.037][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.039][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:29.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.057][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-18 05:48:29.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:29.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:29.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:29.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:29.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:29.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:29.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:29.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.084][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:29.085][private$selectFields]
biodb.TRACE[2025-03-18 05:48:29.087][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-18 05:48:29.088][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-18 05:48:29.089][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:29.091][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.092][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.095][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.097][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.098][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.101][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.103][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:29.104][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-18 05:48:29.106][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.107][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.110][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.111][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-18 05:48:29.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.131][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-18 05:48:29.132][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-18 05:48:29.133][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-18 05:48:29.168][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-18 05:48:29.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-18 05:48:29.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-18 05:48:29.178][biodb::testThat]
biodb.INFO [2025-03-18 05:48:29.179][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-03-18 05:48:29.181][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:29.182][biodb::testThat]
biodb.DEBUG[2025-03-18 05:48:29.184][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-18 05:48:29.186][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:29.188][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-18 05:48:29.190][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:29.192][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-03-18 05:48:29.194][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:29.196][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:29.197][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:29.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:29.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:29.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:29.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:29.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:29.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:29.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:29.215][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.216][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.219][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.226][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:29.228][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:29.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.231][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.232][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:29.234][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:29.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.237][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.239][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:29.240][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:29.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.243][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.244][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.246][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.249][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.250][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.252][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.254][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.256][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:29.258][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:29.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.260][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.262][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.264][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.266][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.268][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:29.270][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:29.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.272][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.274][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:29.276][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:29.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.278][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.280][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:29.282][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:29.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.284][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:29.344][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-03-18 05:48:29.345][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-18 05:48:29.356][biodb::testThat]
biodb.INFO [2025-03-18 05:48:29.357][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-18 05:48:29.359][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:29.360][biodb::testThat]
biodb.DEBUG[2025-03-18 05:48:29.373][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-03-18 05:48:29.375][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-03-18 05:48:29.376][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-03-18 05:48:29.378][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-03-18 05:48:29.380][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-03-18 05:48:29.385][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-03-18 05:48:29.386][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:29.388][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-03-18 05:48:29.390][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:29.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:29.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:29.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:29.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:29.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:29.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:29.404][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.TRACE[2025-03-18 05:48:29.407][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.409][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.420][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.428][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:29.429][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:29.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.432][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.434][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:29.435][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:29.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.438][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.440][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:29.442][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:29.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.444][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.446][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.448][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.450][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.452][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.454][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.456][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.458][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:29.460][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:29.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.462][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.464][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.466][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.468][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.470][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:29.472][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:29.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.474][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.476][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:29.478][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:29.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.480][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.482][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:29.484][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:29.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.486][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:29.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:29.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:29.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:29.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:29.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:29.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:29.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:29.543][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.545][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.548][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.555][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:29.557][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:29.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.559][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.561][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:29.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:29.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.567][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:29.568][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:29.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.571][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.573][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:29.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:29.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.579][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:29.580][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:29.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.583][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:29.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:29.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.591][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.592][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.595][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.602][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.604][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.607][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.608][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.614][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:29.616][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:29.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.618][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.620][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:29.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:29.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.626][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.627][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.630][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.638][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:29.639][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:29.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.642][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.644][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:29.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:29.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.650][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:29.651][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:29.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.654][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.655][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:29.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:29.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.670][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:29.672][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:29.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.674][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.676][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:29.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:29.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:29.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:29.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:29.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:29.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:29.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:29.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:29.734][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.TRACE[2025-03-18 05:48:29.737][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.739][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.741][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.748][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:29.750][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:29.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.753][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.754][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:29.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:29.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.760][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:29.761][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:29.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.764][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.766][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:29.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:29.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.771][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:29.773][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:29.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.776][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:29.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:29.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.783][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.785][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.787][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.789][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:29.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.795][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.796][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.799][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.801][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:29.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.806][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:29.808][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:29.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.810][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.812][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:29.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:29.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.818][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.819][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.822][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:29.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.830][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:29.831][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:29.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.834][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.836][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:29.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:29.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.842][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:29.843][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:29.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.846][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.848][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:29.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:29.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.853][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:29.855][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:29.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.857][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.859][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:29.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:29.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:29.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:29.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:29.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:29.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:29.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:29.963][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-03-18 05:48:29.965][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-18 05:48:29.966][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-03-18 05:48:29.983][biodb::testThat]
biodb.INFO [2025-03-18 05:48:29.985][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-03-18 05:48:29.986][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:29.987][biodb::testThat]
biodb.INFO [2025-03-18 05:48:30.019][biodb::testThat]
biodb.INFO [2025-03-18 05:48:30.020][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-03-18 05:48:30.022][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:30.023][biodb::testThat]
biodb.INFO [2025-03-18 05:48:30.034][biodb::testThat]
biodb.INFO [2025-03-18 05:48:30.035][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-03-18 05:48:30.036][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:30.038][biodb::testThat]
biodb.DEBUG[2025-03-18 05:48:30.041][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[2025-03-18 05:48:30.045][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:30.047][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-03-18 05:48:30.049][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:30.052][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-03-18 05:48:30.067][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:30.068][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:30.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:30.071][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:30.072][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:30.074][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:30.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:30.076][ef$get] fields variable is a list.
biodb.INFO [2025-03-18 05:48:30.078][biodb::testThat]
biodb.INFO [2025-03-18 05:48:30.079][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-03-18 05:48:30.081][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:30.082][biodb::testThat]
biodb.ERROR[2025-03-18 05:48:30.100][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-03-18 05:48:30.123][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-03-18 05:48:30.141][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-18 05:48:30.143][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-18 05:48:30.156][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-18 05:48:30.158][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-18 05:48:30.159][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.162][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.165][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.166][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.INFO [2025-03-18 05:48:30.180][biodb::testContext]
biodb.INFO [2025-03-18 05:48:30.182][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 05:48:30.183][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-03-18 05:48:30.184][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 05:48:30.186][biodb::testContext]
biodb.INFO [2025-03-18 05:48:30.188][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-18 05:48:30.191][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-18 05:48:30.195][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:30.197][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-18 05:48:30.198][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-18 05:48:30.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.204][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-18 05:48:30.205][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-18 05:48:30.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.210][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-18 05:48:30.212][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-18 05:48:30.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.217][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-18 05:48:30.218][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-18 05:48:30.220][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-18 05:48:30.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.224][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[2025-03-18 05:48:30.225][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-18 05:48:30.227][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-18 05:48:30.228][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-18 05:48:30.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.233][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-18 05:48:30.235][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-18 05:48:30.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.240][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-18 05:48:30.241][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-18 05:48:30.243][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-18 05:48:30.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.248][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-18 05:48:30.249][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-18 05:48:30.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.253][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[2025-03-18 05:48:30.254][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-18 05:48:30.256][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-18 05:48:30.257][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-18 05:48:30.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.262][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-18 05:48:30.264][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-18 05:48:30.265][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-18 05:48:30.267][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-18 05:48:30.268][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-18 05:48:30.270][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-18 05:48:30.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.275][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-18 05:48:30.276][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-18 05:48:30.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.281][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-18 05:48:30.283][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-18 05:48:30.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.288][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-18 05:48:30.289][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-18 05:48:30.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.294][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-18 05:48:30.296][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-18 05:48:30.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.301][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-18 05:48:30.303][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-18 05:48:30.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.309][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-18 05:48:30.310][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-18 05:48:30.315][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-18 05:48:30.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.321][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-18 05:48:30.322][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-18 05:48:30.324][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-18 05:48:30.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.329][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-18 05:48:30.332][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.333][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-18 05:48:30.335][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.336][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:30.338][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.339][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.341][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.342][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.343][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 05:48:30.345][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:30.346][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.348][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-18 05:48:30.349][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:30.351][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.352][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.354][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:30.354][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:30.354][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:30.354][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 05:48:30.354][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 05:48:30.355][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:30.357][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:30.358][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:30.360][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:30.361][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:30.362][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:30.364][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.365][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.367][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:30.368][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:30.369][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.371][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.372][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-18 05:48:30.375][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.376][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 05:48:30.378][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.379][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:30.380][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.382][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.383][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.384][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.386][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 05:48:30.387][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:30.389][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.390][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-18 05:48:30.391][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:30.393][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.402][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.404][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:30.404][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:30.404][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:30.404][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 05:48:30.404][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 05:48:30.406][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:30.407][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:30.409][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:30.410][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:30.411][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:30.413][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:30.414][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.415][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.417][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:30.418][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:30.419][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.421][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.422][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-18 05:48:30.425][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.426][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-18 05:48:30.427][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.429][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:30.430][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.432][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.433][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.435][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.436][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 05:48:30.437][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:30.439][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.440][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-18 05:48:30.441][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:30.443][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.444][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.445][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.447][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:30.448][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:30.449][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:30.451][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:30.452][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:30.453][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:30.455][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.456][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.457][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:30.458][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:30.460][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.461][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.463][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-18 05:48:30.465][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.466][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 05:48:30.468][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.469][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:30.470][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.472][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.473][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.475][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.476][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 05:48:30.477][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:30.479][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.480][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-18 05:48:30.481][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:30.483][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.484][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.486][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.487][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:30.489][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:30.490][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:30.491][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:30.492][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:30.494][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:30.495][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.496][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.498][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:30.499][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:30.500][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.502][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:30.503][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:30.505][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.543][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[2025-03-18 05:48:30.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.556][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[2025-03-18 05:48:30.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.568][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[2025-03-18 05:48:30.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.574][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[2025-03-18 05:48:30.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.613][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-18 05:48:30.615][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-18 05:48:30.617][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-18 05:48:30.619][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-18 05:48:30.621][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-18 05:48:30.623][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-18 05:48:30.625][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-18 05:48:30.634][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-18 05:48:30.637][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-18 05:48:30.639][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-18 05:48:30.641][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 05:48:30.643][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-18 05:48:30.645][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-18 05:48:30.647][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-18 05:48:30.649][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-18 05:48:30.651][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-18 05:48:30.653][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-18 05:48:30.655][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-18 05:48:30.657][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-18 05:48:30.659][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-18 05:48:30.661][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-18 05:48:30.663][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-18 05:48:30.665][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-18 05:48:30.667][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-18 05:48:30.669][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-18 05:48:30.671][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-18 05:48:30.673][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-18 05:48:30.675][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-18 05:48:30.677][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-18 05:48:30.679][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-18 05:48:30.681][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-18 05:48:30.683][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-18 05:48:30.685][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-18 05:48:30.687][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-18 05:48:30.689][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-18 05:48:30.691][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-18 05:48:30.693][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-18 05:48:30.695][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-18 05:48:30.697][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-18 05:48:30.699][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-18 05:48:30.701][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-18 05:48:30.703][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-18 05:48:30.705][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-18 05:48:30.707][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-18 05:48:30.709][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-18 05:48:30.711][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-18 05:48:30.713][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-18 05:48:30.715][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-18 05:48:30.717][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-18 05:48:30.719][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-18 05:48:30.721][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-18 05:48:30.723][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-18 05:48:30.725][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-18 05:48:30.727][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-18 05:48:30.729][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-18 05:48:30.731][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-18 05:48:30.733][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-18 05:48:30.735][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-18 05:48:30.737][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-18 05:48:30.739][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-18 05:48:30.741][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-18 05:48:30.743][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-18 05:48:30.745][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-18 05:48:30.747][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-18 05:48:30.749][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-18 05:48:30.751][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-18 05:48:30.753][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-18 05:48:30.755][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-18 05:48:30.757][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-18 05:48:30.759][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-18 05:48:30.761][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-18 05:48:30.763][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-18 05:48:30.765][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-18 05:48:30.767][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-18 05:48:30.769][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-18 05:48:30.772][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-18 05:48:30.774][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-18 05:48:30.776][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-18 05:48:30.778][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-18 05:48:30.780][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-18 05:48:30.782][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-18 05:48:30.784][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-18 05:48:30.786][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-18 05:48:30.788][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-18 05:48:30.790][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-18 05:48:30.791][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:30.793][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.795][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.849][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[2025-03-18 05:48:30.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.884][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[2025-03-18 05:48:30.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:30.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:30.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:30.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:30.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:30.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:30.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:30.956][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-18 05:48:30.958][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-18 05:48:30.960][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.962][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.963][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.965][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:30.966][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.967][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.969][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.970][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-18 05:48:30.971][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-18 05:48:30.973][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:30.974][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.976][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-18 05:48:30.977][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:30.978][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-18 05:48:30.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-18 05:48:30.978][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-18 05:48:30.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-18 05:48:30.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-18 05:48:30.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-18 05:48:30.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-18 05:48:30.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-18 05:48:30.978][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-18 05:48:30.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-18 05:48:30.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-18 05:48:30.980][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:30.981][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:30.981][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:30.981][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:30.983][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-18 05:48:30.984][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:30.985][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:30.987][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:30.988][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:30.989][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:30.990][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:30.992][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-18 05:48:30.992][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-18 05:48:30.993][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:30.994][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:30.996][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:30.997][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-18 05:48:30.997][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-18 05:48:30.999][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-18 05:48:31.001][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 05:48:31.003][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-18 05:48:31.005][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-18 05:48:31.007][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-18 05:48:31.010][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-18 05:48:31.014][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-18 05:48:31.016][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-18 05:48:31.017][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-18 05:48:31.019][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-18 05:48:31.021][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 05:48:31.022][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 05:48:31.024][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-18 05:48:31.026][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-18 05:48:31.027][biodb::testThat]
biodb.INFO [2025-03-18 05:48:31.029][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-03-18 05:48:31.030][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:31.031][biodb::testThat]
biodb.DEBUG[2025-03-18 05:48:31.036][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.INFO [2025-03-18 05:48:31.066][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2025-03-18 05:48:31.068][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-18 05:48:31.069][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-18 05:48:31.071][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2025-03-18 05:48:31.805][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2025-03-18 05:48:32.723][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-18 05:48:32.726][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2025-03-18 05:48:32.759][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2025-03-18 05:48:32.764][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[2025-03-18 05:48:32.788][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-18 05:48:32.789][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-18 05:48:32.811][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-03-18 05:48:33.553][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-03-18 05:48:34.352][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.INFO [2025-03-18 05:48:34.355][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2025-03-18 05:48:34.357][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2025-03-18 05:48:34.362][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2025-03-18 05:48:34.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:34.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:34.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:34.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:34.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:34.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:34.387][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[2025-03-18 05:48:34.390][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[2025-03-18 05:48:34.395][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-18 05:48:34.397][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-18 05:48:34.400][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-03-18 05:48:35.139][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-03-18 05:48:35.881][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-18 05:48:35.886][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2025-03-18 05:48:35.893][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2025-03-18 05:48:35.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:35.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:35.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:35.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:35.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:35.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:35.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:35.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:35.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:35.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:35.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:35.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:35.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:35.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:35.968][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-03-18 05:48:35.973][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:35.975][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-18 05:48:35.977][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:35.979][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-18 05:48:35.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:35.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:35.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:35.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:35.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:35.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:35.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:35.998][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-03-18 05:48:36.002][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:36.028][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-18 05:48:36.031][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:36.033][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-18 05:48:36.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:36.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:36.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:36.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:36.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:36.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:36.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:36.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:36.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:36.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:36.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:36.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:36.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:36.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:36.072][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-03-18 05:48:36.077][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:36.079][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-18 05:48:36.080][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:36.082][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-18 05:48:36.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:36.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:36.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:36.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:36.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:36.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:36.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:36.102][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-03-18 05:48:36.106][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:36.108][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-18 05:48:36.110][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:36.112][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-18 05:48:36.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:36.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:36.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:36.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:36.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:36.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:36.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:36.131][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-03-18 05:48:36.136][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-18 05:48:36.137][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-18 05:48:36.140][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-03-18 05:48:36.881][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-03-18 05:48:37.616][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-18 05:48:37.619][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2025-03-18 05:48:37.625][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2025-03-18 05:48:37.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:37.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:37.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:37.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:37.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:37.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:37.643][FUN] Functions in observer BiodbConfig: [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 [2025-03-18 05:48:37.653][biodb::testThat]
biodb.INFO [2025-03-18 05:48:37.655][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-03-18 05:48:37.656][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:37.658][biodb::testThat]
biodb.DEBUG[2025-03-18 05:48:37.663][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[2025-03-18 05:48:37.668][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-18 05:48:37.670][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-18 05:48:37.673][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-03-18 05:48:38.502][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-03-18 05:48:42.216][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-18 05:48:42.219][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2025-03-18 05:48:42.225][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2025-03-18 05:48:42.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:42.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:42.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:42.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:42.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:42.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:42.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:42.247][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-03-18 05:48:42.251][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-18 05:48:42.253][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-18 05:48:42.256][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-03-18 05:48:42.996][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-03-18 05:48:43.731][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-18 05:48:43.734][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2025-03-18 05:48:43.740][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2025-03-18 05:48:43.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:43.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:43.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:43.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:43.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:43.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-18 05:48:43.782][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-18 05:48:43.785][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-18 05:48:43.786][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-18 05:48:43.788][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-18 05:48:43.789][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:43.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:43.791][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:43.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:43.794][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-18 05:48:43.801][biodb::testContext]
biodb.INFO [2025-03-18 05:48:43.802][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 05:48:43.803][biodb::testContext] Test context - Test web services
biodb.INFO [2025-03-18 05:48:43.805][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 05:48:43.806][biodb::testContext]
biodb.INFO [2025-03-18 05:48:43.809][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-18 05:48:43.812][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-18 05:48:43.817][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:43.818][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-18 05:48:43.820][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-18 05:48:43.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.825][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-18 05:48:43.826][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-18 05:48:43.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.830][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[2025-03-18 05:48:43.831][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-18 05:48:43.833][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-18 05:48:43.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.838][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-18 05:48:43.839][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-18 05:48:43.841][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-18 05:48:43.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.845][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[2025-03-18 05:48:43.846][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-18 05:48:43.847][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-18 05:48:43.849][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-18 05:48:43.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.854][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-18 05:48:43.855][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-18 05:48:43.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.861][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-18 05:48:43.862][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-18 05:48:43.864][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-18 05:48:43.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.869][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-18 05:48:43.870][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-18 05:48:43.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.874][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[2025-03-18 05:48:43.875][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-18 05:48:43.877][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-18 05:48:43.878][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-18 05:48:43.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.883][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-18 05:48:43.885][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-18 05:48:43.886][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-18 05:48:43.887][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-18 05:48:43.889][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-18 05:48:43.890][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-18 05:48:43.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.894][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[2025-03-18 05:48:43.895][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-18 05:48:43.897][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-18 05:48:43.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.901][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-18 05:48:43.903][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-18 05:48:43.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.908][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-18 05:48:43.909][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-18 05:48:43.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.914][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-18 05:48:43.915][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-18 05:48:43.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.920][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-18 05:48:43.921][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-18 05:48:43.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.926][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-18 05:48:43.928][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-18 05:48:43.933][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-18 05:48:43.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.938][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-18 05:48:43.939][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-18 05:48:43.941][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-18 05:48:43.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:43.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:43.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:43.946][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-18 05:48:43.949][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:43.951][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-18 05:48:43.952][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:43.954][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:43.955][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:43.956][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:43.958][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:43.959][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:43.961][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 05:48:43.962][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:43.964][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:43.965][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-18 05:48:43.966][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:43.968][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:43.969][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:43.971][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:43.971][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:43.971][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:43.971][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 05:48:43.971][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 05:48:43.972][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:43.974][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:43.975][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:43.976][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:43.978][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:43.979][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:43.980][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:43.982][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:43.983][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:43.984][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:43.986][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:43.987][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:43.989][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-18 05:48:43.991][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:43.993][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 05:48:43.994][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:43.996][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:43.997][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:43.999][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.000][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:44.001][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.003][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 05:48:44.004][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:44.006][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.007][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-18 05:48:44.008][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:44.010][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:44.021][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.023][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:44.023][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:44.023][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:44.023][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 05:48:44.023][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 05:48:44.025][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:44.027][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:44.028][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:44.029][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:44.031][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:44.032][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:44.033][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.035][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:44.036][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:44.037][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:44.039][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:44.040][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:44.042][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-18 05:48:44.044][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.046][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-18 05:48:44.047][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.049][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:44.050][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.051][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.053][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:44.054][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.055][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 05:48:44.057][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:44.058][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:44.060][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-18 05:48:44.061][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:44.063][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:44.064][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.066][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:44.067][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:44.069][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:44.070][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:44.071][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:44.073][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:44.074][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:44.075][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.076][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:44.078][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:44.079][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:44.080][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:44.082][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:44.083][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-18 05:48:44.086][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.087][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 05:48:44.089][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.090][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:44.091][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.093][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.094][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:44.096][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.097][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 05:48:44.098][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:44.100][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:44.101][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-18 05:48:44.102][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:44.104][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:44.105][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.106][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:44.108][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:44.109][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:44.110][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:44.112][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:44.113][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:44.114][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:44.115][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.117][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:44.118][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:44.119][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:44.121][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:44.122][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:44.124][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:44.125][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.163][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[2025-03-18 05:48:44.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.169][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[2025-03-18 05:48:44.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.175][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[2025-03-18 05:48:44.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.181][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[2025-03-18 05:48:44.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.211][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[2025-03-18 05:48:44.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.220][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[2025-03-18 05:48:44.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.265][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-18 05:48:44.269][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-18 05:48:44.271][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-18 05:48:44.274][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-18 05:48:44.582][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-18 05:48:44.584][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-18 05:48:44.586][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-18 05:48:44.588][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-18 05:48:44.589][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-18 05:48:44.591][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-18 05:48:44.593][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 05:48:44.595][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-18 05:48:44.597][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-18 05:48:44.599][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-18 05:48:44.600][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-18 05:48:44.602][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-18 05:48:44.604][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-18 05:48:44.606][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-18 05:48:44.608][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-18 05:48:44.610][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-18 05:48:44.612][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-18 05:48:44.613][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-18 05:48:44.615][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-18 05:48:44.617][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-18 05:48:44.619][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-18 05:48:44.621][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-18 05:48:44.623][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-18 05:48:44.624][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-18 05:48:44.626][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-18 05:48:44.628][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-18 05:48:44.630][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-18 05:48:44.632][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-18 05:48:44.634][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-18 05:48:44.635][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-18 05:48:44.637][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-18 05:48:44.639][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-18 05:48:44.641][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-18 05:48:44.643][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-18 05:48:44.645][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-18 05:48:44.646][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-18 05:48:44.648][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-18 05:48:44.650][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-18 05:48:44.652][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-18 05:48:44.654][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-18 05:48:44.655][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-18 05:48:44.657][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-18 05:48:44.659][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-18 05:48:44.661][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-18 05:48:44.663][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-18 05:48:44.665][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-18 05:48:44.666][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-18 05:48:44.668][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-18 05:48:44.670][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-18 05:48:44.672][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-18 05:48:44.674][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-18 05:48:44.675][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-18 05:48:44.677][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-18 05:48:44.679][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-18 05:48:44.681][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-18 05:48:44.683][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-18 05:48:44.685][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-18 05:48:44.686][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-18 05:48:44.688][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-18 05:48:44.690][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-18 05:48:44.692][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-18 05:48:44.693][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-18 05:48:44.695][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-18 05:48:44.697][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-18 05:48:44.699][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-18 05:48:44.701][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-18 05:48:44.702][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-18 05:48:44.704][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-18 05:48:44.706][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-18 05:48:44.708][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-18 05:48:44.710][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-18 05:48:44.711][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-18 05:48:44.713][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-18 05:48:44.715][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-18 05:48:44.717][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-18 05:48:44.719][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-18 05:48:44.720][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-18 05:48:44.722][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-18 05:48:44.724][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-18 05:48:44.726][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-18 05:48:44.728][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-18 05:48:44.729][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:44.730][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.733][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.734][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[2025-03-18 05:48:44.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.807][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[2025-03-18 05:48:44.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:44.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:44.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:44.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:44.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:44.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:44.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:44.888][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-18 05:48:44.890][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-18 05:48:44.893][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:44.894][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.896][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.897][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:44.899][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.900][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.902][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.903][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-18 05:48:44.904][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-18 05:48:44.906][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:44.907][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.909][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-18 05:48:44.910][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:44.912][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-18 05:48:44.912][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-18 05:48:44.912][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-18 05:48:44.912][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-18 05:48:44.912][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-18 05:48:44.912][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-18 05:48:44.912][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-18 05:48:44.912][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-18 05:48:44.912][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-18 05:48:44.912][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-18 05:48:44.912][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-18 05:48:44.913][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:44.915][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:44.915][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:44.915][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:44.916][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-18 05:48:44.918][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:44.919][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:44.921][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:44.922][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:44.923][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:44.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:44.926][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-18 05:48:44.926][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-18 05:48:44.928][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:44.929][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:44.930][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:44.932][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-18 05:48:44.932][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-18 05:48:44.934][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-18 05:48:44.936][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 05:48:44.938][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-18 05:48:44.941][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-18 05:48:44.943][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-18 05:48:44.945][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-18 05:48:44.950][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-18 05:48:44.952][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-18 05:48:44.953][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-18 05:48:44.956][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-18 05:48:44.957][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 05:48:44.959][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 05:48:44.961][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-18 05:48:44.962][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-18 05:48:44.964][biodb::testThat]
biodb.INFO [2025-03-18 05:48:44.966][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-03-18 05:48:44.967][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:44.969][biodb::testThat]
biodb.DEBUG[2025-03-18 05:48:44.973][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-18 05:48:44.978][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-18 05:48:44.980][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-18 05:48:44.982][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2025-03-18 05:48:45.707][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2025-03-18 05:48:49.257][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-18 05:48:49.260][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2025-03-18 05:48:49.265][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2025-03-18 05:48:49.270][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-03-18 05:48:49.285][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-18 05:48:49.287][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-18 05:48:49.289][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-03-18 05:48:50.031][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-03-18 05:48:50.772][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-18 05:48:50.774][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2025-03-18 05:48:50.779][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2025-03-18 05:48:50.789][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-18 05:48:50.791][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-18 05:48:50.792][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-18 05:48:50.793][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-18 05:48:50.794][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:50.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:50.797][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:50.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:50.799][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.800][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.INFO [2025-03-18 05:48:50.805][biodb::testContext]
biodb.INFO [2025-03-18 05:48:50.806][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 05:48:50.807][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-03-18 05:48:50.809][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-18 05:48:50.810][biodb::testContext]
biodb.INFO [2025-03-18 05:48:50.812][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-18 05:48:50.814][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-18 05:48:50.819][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:50.820][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-18 05:48:50.822][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-18 05:48:50.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.826][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-18 05:48:50.828][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-18 05:48:50.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.831][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[2025-03-18 05:48:50.832][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-18 05:48:50.834][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-18 05:48:50.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.838][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-18 05:48:50.840][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-18 05:48:50.841][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-18 05:48:50.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.846][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-18 05:48:50.847][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-18 05:48:50.848][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-18 05:48:50.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.853][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-18 05:48:50.854][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-18 05:48:50.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.857][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[2025-03-18 05:48:50.859][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-18 05:48:50.860][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-18 05:48:50.861][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-18 05:48:50.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.866][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-18 05:48:50.867][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-18 05:48:50.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.871][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[2025-03-18 05:48:50.872][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-18 05:48:50.873][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-18 05:48:50.875][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-18 05:48:50.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.879][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-18 05:48:50.881][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-18 05:48:50.882][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-18 05:48:50.883][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-18 05:48:50.885][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-18 05:48:50.886][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-18 05:48:50.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.889][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[2025-03-18 05:48:50.891][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-18 05:48:50.892][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-18 05:48:50.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.896][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-18 05:48:50.898][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-18 05:48:50.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.903][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-18 05:48:50.904][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-18 05:48:50.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.909][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-18 05:48:50.910][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-18 05:48:50.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.914][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.DEBUG[2025-03-18 05:48:50.915][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-18 05:48:50.916][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-18 05:48:50.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.921][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-18 05:48:50.923][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-18 05:48:50.928][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-18 05:48:50.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.933][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-18 05:48:50.934][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-18 05:48:50.936][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-18 05:48:50.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:50.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:50.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:50.941][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-18 05:48:50.943][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:50.944][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-18 05:48:50.946][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:50.947][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:50.948][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:50.950][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:50.951][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:50.952][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:50.954][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 05:48:50.955][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:50.956][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:50.958][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-18 05:48:50.959][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:50.960][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:50.962][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:50.963][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:50.963][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:50.963][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:50.963][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 05:48:50.963][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 05:48:50.965][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:50.966][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:50.967][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:50.969][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:50.970][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:50.971][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:50.972][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:50.974][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:50.975][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:50.976][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:50.977][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:50.979][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:50.980][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-18 05:48:50.983][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:50.984][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 05:48:50.985][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:50.987][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:50.988][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:50.989][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:50.991][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:50.992][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:50.993][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 05:48:50.995][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:50.996][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:50.997][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-18 05:48:50.999][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:51.000][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:51.001][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.002][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:51.002][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:51.002][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:51.002][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-18 05:48:51.002][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-18 05:48:51.004][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:51.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:51.006][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:51.008][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:51.009][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:51.010][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:51.011][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:51.013][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:51.014][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:51.015][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:51.016][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:51.018][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:51.019][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-18 05:48:51.022][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.023][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-18 05:48:51.024][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.025][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:51.027][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.028][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:51.029][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:51.031][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:51.032][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-18 05:48:51.033][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:51.035][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:51.036][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-18 05:48:51.037][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:51.039][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:51.040][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.041][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:51.043][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:51.044][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:51.045][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:51.046][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:51.048][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:51.049][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:51.050][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:51.051][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:51.053][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:51.054][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:51.055][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:51.056][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:51.058][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-18 05:48:51.060][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.062][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-18 05:48:51.063][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.064][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:51.066][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.067][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:51.068][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:51.070][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-18 05:48:51.071][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-18 05:48:51.072][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:51.074][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:51.075][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-18 05:48:51.076][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:51.078][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:51.079][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.080][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:51.082][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-18 05:48:51.083][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:51.084][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:51.085][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:51.087][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:51.088][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:51.089][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:51.090][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:51.092][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:51.093][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:51.094][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:51.096][self$setPropertyValue]
biodb.DEBUG[2025-03-18 05:48:51.097][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:51.099][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.106][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[2025-03-18 05:48:51.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.112][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.DEBUG[2025-03-18 05:48:51.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.191][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[2025-03-18 05:48:51.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.203][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[2025-03-18 05:48:51.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.215][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[2025-03-18 05:48:51.216][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-18 05:48:51.218][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-18 05:48:51.220][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-18 05:48:51.222][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-18 05:48:51.223][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-18 05:48:51.225][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-18 05:48:51.227][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-18 05:48:51.229][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-18 05:48:51.231][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-18 05:48:51.233][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-18 05:48:51.235][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 05:48:51.237][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-18 05:48:51.238][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-18 05:48:51.240][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-18 05:48:51.242][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-18 05:48:51.244][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-18 05:48:51.246][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-18 05:48:51.248][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-18 05:48:51.250][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-18 05:48:51.251][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-18 05:48:51.253][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-18 05:48:51.255][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-18 05:48:51.257][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-18 05:48:51.259][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-18 05:48:51.261][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-18 05:48:51.263][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-18 05:48:51.265][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-18 05:48:51.267][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-18 05:48:51.268][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-18 05:48:51.270][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-18 05:48:51.272][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-18 05:48:51.274][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-18 05:48:51.276][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-18 05:48:51.278][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-18 05:48:51.279][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-18 05:48:51.281][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-18 05:48:51.283][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-18 05:48:51.285][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-18 05:48:51.287][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-18 05:48:51.289][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-18 05:48:51.290][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-18 05:48:51.292][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-18 05:48:51.295][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-18 05:48:51.297][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-18 05:48:51.299][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-18 05:48:51.301][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-18 05:48:51.303][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-18 05:48:51.305][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-18 05:48:51.307][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-18 05:48:51.309][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-18 05:48:51.312][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-18 05:48:51.314][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-18 05:48:51.316][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-18 05:48:51.318][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-18 05:48:51.320][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-18 05:48:51.322][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-18 05:48:51.324][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-18 05:48:51.326][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-18 05:48:51.328][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-18 05:48:51.330][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-18 05:48:51.332][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-18 05:48:51.335][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-18 05:48:51.337][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-18 05:48:51.339][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-18 05:48:51.341][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-18 05:48:51.343][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-18 05:48:51.345][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-18 05:48:51.347][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-18 05:48:51.349][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-18 05:48:51.352][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-18 05:48:51.354][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-18 05:48:51.356][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-18 05:48:51.358][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-18 05:48:51.360][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-18 05:48:51.363][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-18 05:48:51.365][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-18 05:48:51.367][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-18 05:48:51.369][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-18 05:48:51.371][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-18 05:48:51.374][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-18 05:48:51.376][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-18 05:48:51.378][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-18 05:48:51.380][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-18 05:48:51.382][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-18 05:48:51.384][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-18 05:48:51.385][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-18 05:48:51.386][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.389][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.408][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[2025-03-18 05:48:51.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-18 05:48:51.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.539][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-18 05:48:51.541][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-18 05:48:51.544][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:51.545][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-18 05:48:51.547][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.548][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-18 05:48:51.550][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.551][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-18 05:48:51.553][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.554][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-18 05:48:51.556][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-18 05:48:51.557][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-18 05:48:51.559][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.561][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-18 05:48:51.562][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-18 05:48:51.564][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-18 05:48:51.564][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-18 05:48:51.564][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-18 05:48:51.564][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-18 05:48:51.564][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-18 05:48:51.564][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-18 05:48:51.564][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-18 05:48:51.564][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-18 05:48:51.564][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-18 05:48:51.564][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-18 05:48:51.564][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-18 05:48:51.566][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-18 05:48:51.567][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-18 05:48:51.567][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-18 05:48:51.567][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-18 05:48:51.569][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-18 05:48:51.571][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:51.572][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:51.573][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-18 05:48:51.575][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-18 05:48:51.576][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-18 05:48:51.578][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-18 05:48:51.579][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-18 05:48:51.579][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-18 05:48:51.581][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-18 05:48:51.582][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-18 05:48:51.584][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-18 05:48:51.585][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-18 05:48:51.585][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-18 05:48:51.587][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-18 05:48:51.590][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-18 05:48:51.592][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-18 05:48:51.595][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-18 05:48:51.597][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-18 05:48:51.600][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-18 05:48:51.605][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-18 05:48:51.606][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-18 05:48:51.616][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-18 05:48:51.618][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-18 05:48:51.620][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 05:48:51.622][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-18 05:48:51.623][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-18 05:48:51.625][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-18 05:48:51.627][biodb::testThat]
biodb.INFO [2025-03-18 05:48:51.628][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-03-18 05:48:51.630][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-18 05:48:51.631][biodb::testThat]
biodb.DEBUG[2025-03-18 05:48:51.635][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-18 05:48:51.640][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:51.642][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-18 05:48:51.644][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:51.647][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-18 05:48:51.652][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[2025-03-18 05:48:51.656][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-18 05:48:51.658][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-18 05:48:51.660][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-18 05:48:51.662][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-03-18 05:48:51.668][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-03-18 05:48:51.670][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-18 05:48:51.672][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-03-18 05:48:51.674][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-18 05:48:51.676][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-18 05:48:51.677][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-18 05:48:51.679][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-18 05:48:51.681][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-18 05:48:51.682][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-18 05:48:51.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:51.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:51.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:51.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:51.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:51.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:51.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-18 05:48:51.701][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2025-03-18 05:48:51.705][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-18 05:48:51.707][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-18 05:48:51.708][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2025-03-18 05:48:55.569][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2025-03-18 05:48:56.855][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-18 05:48:56.859][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2025-03-18 05:48:56.864][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2025-03-18 05:48:56.868][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2025-03-18 05:48:56.870][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-18 05:48:56.872][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-18 05:48:56.873][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-18 05:48:56.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-18 05:48:56.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:56.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:56.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:56.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:56.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:56.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-18 05:48:56.898][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:56.900][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:56.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.903][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:56.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:56.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.911][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:56.912][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:56.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.915][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.917][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-18 05:48:56.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-18 05:48:56.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.923][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:56.925][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:56.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.927][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.929][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-18 05:48:56.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-18 05:48:56.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.935][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-18 05:48:56.937][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-18 05:48:56.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.940][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.942][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-18 05:48:56.943][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-18 05:48:56.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.946][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.948][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:56.950][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:56.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.952][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.954][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:56.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-18 05:48:56.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.961][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:56.962][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:56.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.965][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.967][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-18 05:48:56.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-18 05:48:56.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.974][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:56.975][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:56.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.978][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:56.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-18 05:48:56.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.986][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:56.988][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:56.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.991][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.993][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-18 05:48:56.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-18 05:48:56.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:56.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:56.999][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:57.001][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:57.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.003][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.006][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-18 05:48:57.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-18 05:48:57.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.011][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:57.013][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:57.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.016][ef$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.018][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-18 05:48:57.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-18 05:48:57.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:57.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:57.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:57.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:57.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:57.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:57.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-18 05:48:57.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-18 05:48:57.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:57.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:57.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:57.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:57.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:57.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:57.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:57.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:57.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:57.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:57.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-18 05:48:57.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-18 05:48:57.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-18 05:48:57.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-18 05:48:57.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-18 05:48:57.082][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-03-18 05:48:57.087][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-18 05:48:57.089][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-18 05:48:57.090][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-18 05:48:57.092][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-18 05:48:57.093][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-18 05:48:57.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-18 05:48:57.095][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-18 05:48:57.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-18 05:48:57.098][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-18 05:48:57.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 359 ]
>
> proc.time()
user system elapsed
22.108 1.057 49.836
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 0.854 | 0.060 | 0.920 | |
| ChebiEntry | 0.210 | 0.001 | 0.211 | |