Pierrick Roger
| Snapshot Date: 2025-02-03 13:00 -0500 (Mon, 03 Feb 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 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2025-02-06 12:11 -0500 (Thu, 06 Feb 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4753 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4501 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4524 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4476 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4407 |
| 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: 2025-02-04 04:51:50 -0000 (Tue, 04 Feb 2025) |
| EndedAt: 2025-02-04 05:07:04 -0000 (Tue, 04 Feb 2025) |
| EllapsedTime: 913.7 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 4.4.2 (2024-10-31)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 12.3.1 (openEuler 12.3.1-36.oe2403)
* 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
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
ChebiConn 1.106 0.099 5.359
* 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-4.4.2/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 4.4.2 (2024-10-31) -- "Pile of Leaves"
Copyright (C) 2024 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 [2025-02-04 05:06:11.443][biodb::testContext]
biodb.INFO [2025-02-04 05:06:11.446][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-04 05:06:11.447][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-02-04 05:06:11.449][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-04 05:06:11.450][biodb::testContext]
biodb.INFO [2025-02-04 05:06:11.458][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-02-04 05:06:11.461][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-02-04 05:06:11.470][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:11.472][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-04 05:06:11.474][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-04 05:06:11.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.479][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-04 05:06:11.507][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-04 05:06:11.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.513][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-04 05:06:11.515][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-04 05:06:11.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.520][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-04 05:06:11.522][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-04 05:06:11.524][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-04 05:06:11.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.530][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-04 05:06:11.531][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-04 05:06:11.533][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-04 05:06:11.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.539][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-04 05:06:11.541][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-04 05:06:11.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.546][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-04 05:06:11.548][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-04 05:06:11.550][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-04 05:06:11.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.555][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-04 05:06:11.557][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-04 05:06:11.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.563][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-04 05:06:11.565][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-04 05:06:11.566][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-04 05:06:11.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.572][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-04 05:06:11.574][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-04 05:06:11.575][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-04 05:06:11.577][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-04 05:06:11.578][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-04 05:06:11.580][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-04 05:06:11.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.584][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[2025-02-04 05:06:11.586][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-04 05:06:11.587][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-04 05:06:11.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.593][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-04 05:06:11.595][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-04 05:06:11.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.599][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[2025-02-04 05:06:11.600][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-04 05:06:11.602][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-04 05:06:11.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.608][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-04 05:06:11.610][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-04 05:06:11.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.615][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-04 05:06:11.617][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-04 05:06:11.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.622][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-04 05:06:11.624][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-04 05:06:11.630][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-04 05:06:11.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.635][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-04 05:06:11.637][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-04 05:06:11.639][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-04 05:06:11.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.648][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-04 05:06:11.697][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.732][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-04 05:06:11.734][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.735][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:11.737][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.738][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.740][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.741][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.743][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-04 05:06:11.744][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:11.745][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.747][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-04 05:06:11.748][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:11.750][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.751][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.752][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:11.752][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:11.752][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:11.752][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-04 05:06:11.752][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-04 05:06:11.754][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:11.755][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:11.756][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:11.757][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:11.759][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:11.760][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:11.761][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.763][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.764][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:11.766][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:11.767][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.768][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.770][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-04 05:06:11.773][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.774][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-04 05:06:11.775][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.777][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:11.778][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.780][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.781][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.783][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.784][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-04 05:06:11.786][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:11.787][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.789][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-04 05:06:11.790][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:11.792][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.793][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.795][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:11.795][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:11.795][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:11.795][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-04 05:06:11.795][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-04 05:06:11.796][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:11.798][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:11.799][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:11.800][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:11.802][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:11.803][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:11.805][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.806][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.808][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:11.809][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:11.810][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.812][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.814][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-04 05:06:11.816][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.818][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-04 05:06:11.819][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.821][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:11.822][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.824][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.825][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.827][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.828][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-04 05:06:11.829][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:11.831][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.832][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-04 05:06:11.834][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:11.835][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.836][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.838][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.839][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:11.841][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:11.842][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:11.843][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:11.845][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:11.846][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:11.848][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.849][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.850][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:11.852][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:11.853][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.855][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.856][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-04 05:06:11.859][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.860][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-04 05:06:11.862][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.863][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:11.865][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.866][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.868][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.869][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.870][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-04 05:06:11.872][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:11.873][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.875][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-04 05:06:11.876][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:11.878][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.879][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:11.881][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.882][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:11.883][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:11.885][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:11.886][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:11.888][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:11.889][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:11.890][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:11.892][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.893][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:11.894][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:11.896][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:11.897][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:11.902][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:11.904][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.919][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[2025-02-04 05:06:11.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.926][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[2025-02-04 05:06:11.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.932][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[2025-02-04 05:06:11.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.939][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[2025-02-04 05:06:11.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.945][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[2025-02-04 05:06:11.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:11.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:11.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:11.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:11.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:11.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.019][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-04 05:06:12.024][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-04 05:06:12.027][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-04 05:06:12.029][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-04 05:06:12.031][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-04 05:06:12.033][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-04 05:06:12.035][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-04 05:06:12.037][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-04 05:06:12.039][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-04 05:06:12.041][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-04 05:06:12.043][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-04 05:06:12.045][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-04 05:06:12.047][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-04 05:06:12.049][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-04 05:06:12.051][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-04 05:06:12.054][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-04 05:06:12.056][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-04 05:06:12.058][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-04 05:06:12.060][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-04 05:06:12.062][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-04 05:06:12.065][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-04 05:06:12.067][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-04 05:06:12.069][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-04 05:06:12.072][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-04 05:06:12.074][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-04 05:06:12.076][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-04 05:06:12.078][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-04 05:06:12.080][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-04 05:06:12.082][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-04 05:06:12.084][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-04 05:06:12.086][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-04 05:06:12.087][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-04 05:06:12.089][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-04 05:06:12.091][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-04 05:06:12.099][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-04 05:06:12.101][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-04 05:06:12.103][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-04 05:06:12.105][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-04 05:06:12.107][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-04 05:06:12.109][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-04 05:06:12.111][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-04 05:06:12.112][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-04 05:06:12.114][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-04 05:06:12.116][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-04 05:06:12.118][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-04 05:06:12.120][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-04 05:06:12.122][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-04 05:06:12.123][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-04 05:06:12.125][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-04 05:06:12.127][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-04 05:06:12.129][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-04 05:06:12.131][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-04 05:06:12.132][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-04 05:06:12.134][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-04 05:06:12.136][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-04 05:06:12.138][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-04 05:06:12.140][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-04 05:06:12.142][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-04 05:06:12.143][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-04 05:06:12.145][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-04 05:06:12.147][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-04 05:06:12.149][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-04 05:06:12.151][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-04 05:06:12.153][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-04 05:06:12.155][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-04 05:06:12.156][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-04 05:06:12.158][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-04 05:06:12.160][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-04 05:06:12.162][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-04 05:06:12.164][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-04 05:06:12.166][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-04 05:06:12.168][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-04 05:06:12.170][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-04 05:06:12.171][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-04 05:06:12.173][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-04 05:06:12.175][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-04 05:06:12.177][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-04 05:06:12.179][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-04 05:06:12.181][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-04 05:06:12.183][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-04 05:06:12.184][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-04 05:06:12.186][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-04 05:06:12.188][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-04 05:06:12.196][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-04 05:06:12.198][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-02-04 05:06:12.202][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:12.203][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.205][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.220][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[2025-02-04 05:06:12.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.236][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[2025-02-04 05:06:12.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.253][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[2025-02-04 05:06:12.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.261][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[2025-02-04 05:06:12.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.269][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[2025-02-04 05:06:12.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.286][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[2025-02-04 05:06:12.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.294][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[2025-02-04 05:06:12.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:12.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:12.353][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-04 05:06:12.366][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-04 05:06:12.369][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:12.370][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-04 05:06:12.372][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:12.373][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:12.374][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:12.375][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:12.377][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:12.378][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-04 05:06:12.379][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-04 05:06:12.380][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:12.382][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:12.383][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-04 05:06:12.384][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:12.385][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-04 05:06:12.385][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-04 05:06:12.385][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-04 05:06:12.385][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-04 05:06:12.385][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-04 05:06:12.385][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-04 05:06:12.385][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-04 05:06:12.385][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-04 05:06:12.385][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-04 05:06:12.385][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-04 05:06:12.385][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-04 05:06:12.387][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:12.388][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:12.388][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:12.388][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:12.389][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-04 05:06:12.391][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:12.392][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:12.393][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:12.394][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:12.395][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:12.397][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:12.398][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-04 05:06:12.398][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-04 05:06:12.399][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:12.400][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:12.401][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:12.403][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-04 05:06:12.403][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-04 05:06:12.411][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-04 05:06:12.413][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-04 05:06:12.415][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-04 05:06:12.417][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-04 05:06:12.419][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-04 05:06:12.421][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-04 05:06:12.454][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-04 05:06:12.455][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-04 05:06:12.460][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-04 05:06:12.465][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-04 05:06:12.470][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-04 05:06:12.472][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-04 05:06:12.473][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-04 05:06:12.475][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-04 05:06:12.486][biodb::testThat]
biodb.INFO [2025-02-04 05:06:12.487][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-02-04 05:06:12.488][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:12.489][biodb::testThat]
biodb.TRACE[2025-02-04 05:06:12.495][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.4.2/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-02-04 05:06:12.498][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:12.502][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:12.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:12.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:12.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:12.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:12.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:12.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:12.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:12.545][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.546][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.549][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.573][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:12.574][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:12.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.577][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.614][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:12.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:12.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.620][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:12.621][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:12.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.623][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.625][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:12.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:12.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.630][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:12.632][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:12.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.634][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:12.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:12.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.641][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:12.643][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:12.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.645][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:12.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:12.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.652][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:12.654][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:12.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.656][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.658][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:12.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:12.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.663][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:12.665][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:12.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.667][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.669][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:12.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:12.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.674][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:12.675][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:12.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.678][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:12.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:12.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.685][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:12.687][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:12.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.689][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.691][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:12.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:12.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.696][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:12.698][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:12.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.700][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.702][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:12.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:12.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.707][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:12.709][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:12.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.711][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.713][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:12.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:12.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:12.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:12.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:12.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:12.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:12.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:12.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:12.829][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-02-04 05:06:12.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:12.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:12.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:12.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:12.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:12.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:12.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:12.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:12.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:12.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:12.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:12.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:12.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.897][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-04 05:06:12.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-04 05:06:12.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.902][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-04 05:06:12.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-04 05:06:12.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.907][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-04 05:06:12.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-04 05:06:12.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.912][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-04 05:06:12.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-04 05:06:12.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:12.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:12.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:12.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:12.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:12.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:12.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.045][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.046][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.049][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.112][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.113][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.116][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.133][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:13.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:13.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.138][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:13.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:13.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:13.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:13.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.148][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:13.150][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:13.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.152][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:13.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:13.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.169][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:13.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:13.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.175][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:13.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:13.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.181][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:13.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:13.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.186][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:13.188][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:13.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.190][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.192][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:13.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:13.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.226][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.228][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.231][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.266][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.268][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.270][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.287][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:13.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:13.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.292][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:13.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:13.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.298][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:13.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:13.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.303][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:13.304][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:13.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.307][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.308][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:13.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:13.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.323][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.329][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.334][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.339][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.341][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.343][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.344][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.359][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.365][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.370][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.375][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.376][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.379][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.380][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.395][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:13.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:13.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.408][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:13.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:13.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.413][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:13.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:13.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.418][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:13.420][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:13.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.423][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.424][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:13.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:13.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.450][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.455][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.457][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.459][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.461][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:13.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:13.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:13.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:13.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.487][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:13.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:13.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.492][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:13.494][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:13.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.496][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:13.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:13.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.513][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.514][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.517][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.523][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:13.525][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:13.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.527][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.533][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:13.535][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:13.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.538][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.544][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:13.546][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:13.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.548][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.555][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.556][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.559][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.565][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.567][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.569][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.575][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.577][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.580][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.586][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.587][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.590][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.596][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.597][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.600][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.606][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:13.607][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:13.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.610][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.616][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:13.618][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:13.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.620][ef$get] fields variable is a list.
biodb.INFO [2025-02-04 05:06:13.630][biodb::testThat]
biodb.INFO [2025-02-04 05:06:13.631][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-02-04 05:06:13.633][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:13.634][biodb::testThat]
biodb.DEBUG[2025-02-04 05:06:13.653][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-02-04 05:06:13.662][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:13.667][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-02-04 05:06:13.669][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:13.671][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-02-04 05:06:13.672][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:13.714][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:13.715][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:13.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:13.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:13.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:13.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:13.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:13.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:13.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:13.733][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.734][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.737][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.767][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:13.769][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:13.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.772][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.773][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:13.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:13.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.779][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:13.780][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:13.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.783][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.784][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:13.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:13.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.790][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:13.791][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:13.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.794][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:13.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:13.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.802][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.803][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.806][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:13.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.813][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.815][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.817][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.819][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:13.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.825][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:13.826][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.828][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.830][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:13.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:13.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.836][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.837][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.840][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:13.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.847][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:13.848][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:13.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.851][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.853][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:13.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:13.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.858][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:13.860][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.862][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.864][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:13.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:13.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.870][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:13.871][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:13.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.874][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.876][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:13.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:13.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:13.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:13.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:13.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:13.935][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-02-04 05:06:13.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-02-04 05:06:13.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-02-04 05:06:13.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-02-04 05:06:13.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-02-04 05:06:13.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:13.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-02-04 05:06:13.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-02-04 05:06:13.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-04 05:06:13.961][biodb::testThat]
biodb.INFO [2025-02-04 05:06:13.962][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-02-04 05:06:13.964][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:13.965][biodb::testThat]
biodb.TRACE[2025-02-04 05:06:13.969][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:13.970][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:13.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:13.973][ef$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:13.974][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-02-04 05:06:14.017][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:14.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:14.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.023][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:14.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:14.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:14.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:14.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:14.038][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-02-04 05:06:14.043][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-04 05:06:14.072][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:14.095][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-04 05:06:14.097][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:14.099][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-04 05:06:14.134][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[2025-02-04 05:06:14.139][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:14.141][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-04 05:06:14.143][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:14.146][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-04 05:06:14.149][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-02-04 05:06:14.165][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:14.166][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:14.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.169][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.170][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:14.172][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:14.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.174][ef$get] fields variable is a list.
biodb.INFO [2025-02-04 05:06:14.180][biodb::testThat]
biodb.INFO [2025-02-04 05:06:14.181][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-02-04 05:06:14.182][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:14.183][biodb::testThat]
biodb.TRACE[2025-02-04 05:06:14.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:14.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:14.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:14.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:14.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.227][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:14.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:14.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:14.315][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[2025-02-04 05:06:14.320][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:14.322][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-04 05:06:14.323][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:14.325][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-02-04 05:06:14.345][biodb::testThat]
biodb.INFO [2025-02-04 05:06:14.347][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-02-04 05:06:14.348][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:14.349][biodb::testThat]
biodb.TRACE[2025-02-04 05:06:14.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:14.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:14.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.381][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:14.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:14.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.386][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:14.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:14.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:14.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:14.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:14.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:14.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:14.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:14.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.407][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-04 05:06:14.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-04 05:06:14.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.412][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-04 05:06:14.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-04 05:06:14.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.417][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-04 05:06:14.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-04 05:06:14.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.422][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-04 05:06:14.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-04 05:06:14.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.453][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:14.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:14.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:14.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:14.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.464][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:14.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:14.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.469][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:14.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:14.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:14.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:14.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:14.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:14.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.485][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-04 05:06:14.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-04 05:06:14.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.490][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-04 05:06:14.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-04 05:06:14.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.495][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-04 05:06:14.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-04 05:06:14.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:14.501][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-04 05:06:14.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-04 05:06:14.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:14.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-04 05:06:14.513][biodb::testThat]
biodb.INFO [2025-02-04 05:06:14.514][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-02-04 05:06:14.516][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:14.517][biodb::testThat]
biodb.INFO [2025-02-04 05:06:14.527][biodb::testThat]
biodb.INFO [2025-02-04 05:06:14.529][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-02-04 05:06:14.530][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:14.531][biodb::testThat]
biodb.INFO [2025-02-04 05:06:14.542][biodb::testThat]
biodb.INFO [2025-02-04 05:06:14.543][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-02-04 05:06:14.545][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:14.546][biodb::testThat]
biodb.DEBUG[2025-02-04 05:06:14.551][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-02-04 05:06:16.253][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-02-04 05:06:18.001][biodb::testThat]
biodb.INFO [2025-02-04 05:06:18.003][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-02-04 05:06:18.005][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:18.007][biodb::testThat]
biodb.DEBUG[2025-02-04 05:06:18.889][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[2025-02-04 05:06:20.788][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:20.790][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:20.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:20.793][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:20.794][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:20.796][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:20.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:20.798][ef$get] fields variable is a list.
biodb.INFO [2025-02-04 05:06:20.801][biodb::testThat]
biodb.INFO [2025-02-04 05:06:20.802][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-02-04 05:06:20.804][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:20.805][biodb::testThat]
biodb.TRACE[2025-02-04 05:06:20.820][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:20.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:20.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:20.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:20.826][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:20.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:20.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:20.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:20.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:20.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:20.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:20.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:20.976][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[2025-02-04 05:06:20.981][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:20.983][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-04 05:06:20.984][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:20.986][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-04 05:06:21.088][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[2025-02-04 05:06:21.094][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:21.097][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-04 05:06:21.099][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:21.101][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-02-04 05:06:21.128][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-04 05:06:21.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-04 05:06:21.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:21.183][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[2025-02-04 05:06:21.188][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:21.190][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-04 05:06:21.192][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:21.195][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-04 05:06:21.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:21.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:21.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:21.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:21.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:21.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:21.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:21.231][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-02-04 05:06:21.303][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:21.306][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-02-04 05:06:21.308][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:21.311][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2025-02-04 05:06:21.313][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:21.315][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:21.316][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:21.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:21.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:21.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:21.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:21.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:21.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:21.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:21.336][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.338][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.341][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.351][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:21.353][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:21.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.356][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.358][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:21.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:21.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.366][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:21.368][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:21.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.371][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.373][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:21.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:21.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.379][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:21.381][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:21.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.383][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:21.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:21.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.391][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:21.392][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:21.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.395][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:21.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:21.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.402][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:21.404][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:21.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.406][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.408][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:21.410][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.412][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.414][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:21.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.420][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:21.421][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:21.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.424][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:21.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:21.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.432][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:21.434][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:21.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.437][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:21.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:21.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.445][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:21.446][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:21.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.449][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.451][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:21.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:21.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.456][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:21.458][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:21.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.461][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.462][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:21.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:21.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:21.579][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-02-04 05:06:21.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:21.610][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[2025-02-04 05:06:21.638][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:21.640][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-04 05:06:21.642][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:21.645][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-04 05:06:21.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:21.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:21.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:21.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:21.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:21.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:21.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:21.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:21.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:21.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:21.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:21.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:21.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:21.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:21.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:21.719][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-02-04 05:06:21.720][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:21.723][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-02-04 05:06:21.725][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:21.727][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2025-02-04 05:06:21.729][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:21.731][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:21.732][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:21.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:21.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:21.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:21.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:21.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:21.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:21.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:21.750][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.752][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.754][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.762][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:21.763][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:21.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.766][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.768][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:21.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:21.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.774][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:21.776][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:21.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.778][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.780][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:21.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:21.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.786][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:21.788][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:21.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.791][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:21.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:21.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.798][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:21.800][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:21.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.802][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:21.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:21.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.810][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:21.812][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:21.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.814][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.816][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:21.818][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.821][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.822][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:21.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.829][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:21.830][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:21.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.833][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:21.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:21.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.841][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:21.842][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:21.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.845][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.847][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:21.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:21.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.853][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:21.855][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:21.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.858][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.860][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:21.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:21.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.866][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:21.868][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:21.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.871][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.873][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:21.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:21.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:21.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:21.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:21.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:21.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:21.993][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-02-04 05:06:21.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:21.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:21.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:22.037][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[2025-02-04 05:06:22.067][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:22.069][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-04 05:06:22.071][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:22.072][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-04 05:06:22.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:22.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:22.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:22.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:22.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:22.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:22.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:22.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:22.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:22.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:22.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:22.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:22.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:22.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:22.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:22.121][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-02-04 05:06:22.123][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:22.125][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-02-04 05:06:22.127][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:22.129][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-02-04 05:06:22.131][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:22.132][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:22.134][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:22.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:22.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:22.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:22.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:22.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:22.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:22.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:22.151][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.153][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.156][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.163][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:22.164][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:22.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.167][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.169][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:22.170][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:22.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.173][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.175][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:22.176][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:22.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.179][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.180][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:22.182][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:22.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.185][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.186][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:22.188][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:22.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.190][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.192][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:22.200][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.204][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.205][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:22.207][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:22.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.209][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.211][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:22.213][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:22.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.215][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:22.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:22.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.223][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:22.224][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:22.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.227][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.229][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:22.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:22.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.235][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:22.236][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:22.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.239][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:22.346][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-02-04 05:06:22.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:22.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:22.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:22.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:22.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:22.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:22.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:22.390][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[2025-02-04 05:06:22.392][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-02-04 05:06:22.393][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:22.395][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-02-04 05:06:22.397][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:22.400][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-02-04 05:06:22.402][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:22.404][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:22.405][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:22.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:22.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:22.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:22.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:22.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:22.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:22.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:22.424][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.425][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.428][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.435][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:22.444][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:22.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.447][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.449][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:22.450][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:22.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.453][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.455][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:22.456][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:22.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.459][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.461][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:22.462][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:22.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.465][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.467][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:22.469][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:22.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.471][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.473][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:22.475][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.478][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.479][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:22.481][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:22.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.484][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.485][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:22.487][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:22.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.490][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.492][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:22.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:22.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.498][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:22.499][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:22.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.502][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.504][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:22.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:22.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.510][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:22.511][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:22.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.514][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:22.587][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-02-04 05:06:22.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:22.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:22.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:22.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:22.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:22.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:22.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:22.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:22.641][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-02-04 05:06:22.642][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:22.645][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-02-04 05:06:22.647][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:22.655][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-02-04 05:06:22.657][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:22.659][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:22.661][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:22.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:22.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:22.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:22.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:22.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:22.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:22.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:22.682][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.684][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.687][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.696][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:22.697][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:22.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.700][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.703][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:22.704][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:22.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.707][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.710][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:22.712][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:22.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.715][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.717][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:22.719][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:22.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.722][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.723][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:22.725][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:22.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.728][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.730][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:22.732][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.749][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.750][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:22.752][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:22.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.755][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.757][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:22.758][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:22.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.761][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.763][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:22.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:22.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.769][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:22.771][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:22.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.774][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.775][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:22.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:22.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.782][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:22.783][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:22.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.786][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:22.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:22.844][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-02-04 05:06:22.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:22.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:22.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:22.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:22.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:22.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:22.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:22.884][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[2025-02-04 05:06:22.886][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-02-04 05:06:22.887][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:22.889][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-02-04 05:06:22.891][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:22.894][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-02-04 05:06:22.895][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:22.897][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:22.898][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:22.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:22.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:22.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:22.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:22.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:22.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:22.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:22.916][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.918][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.920][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:22.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:22.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.928][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:22.929][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:22.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.932][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.934][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:22.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:22.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.939][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:22.941][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:22.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.943][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.945][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:22.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:22.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.951][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:22.952][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:22.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.955][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:22.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:22.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.962][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:22.964][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:22.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.966][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:22.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:22.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.974][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:22.975][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:22.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.978][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.979][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:22.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:22.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.985][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:22.986][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:22.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:22.989][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:22.998][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:23.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.004][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.005][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.007][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.015][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:23.016][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:23.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.019][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:23.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:23.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.027][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:23.028][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:23.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.031][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.033][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:23.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:23.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.039][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:23.041][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:23.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.043][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.045][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:23.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:23.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:23.105][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-02-04 05:06:23.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:23.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:23.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:23.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:23.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:23.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:23.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:23.135][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.DEBUG[2025-02-04 05:06:23.136][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-02-04 05:06:23.137][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:23.139][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-02-04 05:06:23.141][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:23.144][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-02-04 05:06:23.145][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:23.147][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:23.148][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:23.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:23.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:23.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:23.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:23.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:23.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:23.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:23.166][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.167][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.170][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.177][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:23.179][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:23.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.181][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.183][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:23.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:23.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.188][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:23.190][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:23.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.192][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.194][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:23.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:23.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.200][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:23.201][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:23.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.204][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:23.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:23.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.211][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.212][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.215][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.222][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:23.223][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:23.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.226][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.228][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:23.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:23.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.233][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:23.243][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.245][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.247][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:23.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.252][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.254][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.256][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.264][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:23.265][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:23.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.268][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.270][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:23.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:23.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.275][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:23.277][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:23.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.279][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.281][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:23.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:23.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.287][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:23.289][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:23.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.291][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.293][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:23.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:23.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:23.359][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-02-04 05:06:23.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:23.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:23.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:23.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:23.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:23.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:23.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:23.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:23.395][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-02-04 05:06:23.397][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:23.399][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-02-04 05:06:23.401][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:23.404][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-02-04 05:06:23.406][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:23.408][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:23.410][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:23.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:23.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:23.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:23.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:23.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:23.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:23.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:23.428][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.434][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.437][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.444][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:23.445][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:23.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.448][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.450][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:23.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:23.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.455][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:23.457][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:23.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.459][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.461][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:23.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:23.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.467][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:23.468][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:23.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.471][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.473][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:23.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:23.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.478][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.479][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.482][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.489][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:23.491][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:23.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.493][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.495][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:23.497][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.506][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.508][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:23.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.513][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.515][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.517][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.524][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:23.526][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:23.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.528][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:23.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:23.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.536][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:23.537][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:23.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.540][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.542][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:23.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:23.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.547][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:23.549][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:23.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.551][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.553][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:23.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:23.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:23.614][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-02-04 05:06:23.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:23.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:23.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:23.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:23.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:23.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:23.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:23.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:23.646][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-02-04 05:06:23.647][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:23.649][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-02-04 05:06:23.651][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:23.654][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-02-04 05:06:23.655][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:23.657][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:23.659][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:23.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:23.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:23.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:23.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:23.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:23.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:23.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:23.677][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.679][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.681][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.689][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:23.691][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:23.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.693][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.695][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:23.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:23.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.701][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:23.703][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:23.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.705][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.707][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:23.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:23.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.713][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:23.715][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:23.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.717][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.719][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:23.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:23.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.724][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.726][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.728][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.736][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:23.737][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:23.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.740][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.741][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:23.743][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.746][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.754][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:23.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.760][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.761][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.764][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.771][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:23.772][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:23.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.775][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.777][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:23.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:23.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.782][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:23.784][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:23.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.786][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.788][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:23.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:23.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.793][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:23.795][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:23.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.797][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.799][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:23.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:23.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:23.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:23.858][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-02-04 05:06:23.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:23.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:23.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:23.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:23.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:23.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:23.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:23.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:23.889][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-02-04 05:06:23.890][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:23.892][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-02-04 05:06:23.894][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:23.896][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-02-04 05:06:23.898][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:23.900][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:23.901][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:23.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:23.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:23.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:23.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:23.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:23.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:23.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:23.918][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.920][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.922][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:23.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:23.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.929][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:23.931][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:23.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.933][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.935][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:23.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:23.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.940][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:23.942][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:23.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.944][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.946][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:23.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:23.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.951][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:23.953][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:23.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.955][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:23.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:23.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.962][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.964][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.966][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:23.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.973][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:23.975][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:23.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.977][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.979][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:23.980][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.983][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.985][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:23.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:23.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:23.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:23.997][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:23.999][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.001][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.008][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:24.010][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:24.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.012][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:24.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:24.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.020][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:24.021][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:24.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.024][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.025][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:24.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:24.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.031][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:24.032][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:24.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.035][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.037][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:24.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:24.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:24.095][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-02-04 05:06:24.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:24.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:24.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:24.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:24.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:24.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:24.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:24.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:24.127][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-02-04 05:06:24.128][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:24.130][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-02-04 05:06:24.132][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:24.134][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-02-04 05:06:24.136][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:24.138][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:24.139][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:24.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:24.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:24.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:24.150][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:24.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:24.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:24.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:24.157][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.158][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.161][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.168][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:24.169][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:24.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.171][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.173][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:24.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:24.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.179][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:24.180][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:24.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.183][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.184][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:24.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:24.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.190][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:24.191][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:24.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.194][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:24.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:24.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.201][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.203][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.205][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.207][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.213][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:24.214][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:24.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.217][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.218][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:24.220][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.222][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.224][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:24.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.237][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.238][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.241][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.247][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:24.249][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:24.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.251][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.253][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:24.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:24.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.259][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:24.260][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:24.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.263][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.264][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:24.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:24.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.270][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:24.271][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:24.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.273][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.275][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:24.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:24.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:24.335][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-02-04 05:06:24.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:24.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:24.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:24.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:24.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:24.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:24.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:24.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:24.373][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-02-04 05:06:24.374][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:24.377][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-02-04 05:06:24.379][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:24.382][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-02-04 05:06:24.384][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:24.386][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:24.388][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:24.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:24.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:24.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:24.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:24.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:24.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:24.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:24.411][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.416][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.424][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:24.426][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:24.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.429][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.431][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:24.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:24.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.437][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:24.438][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:24.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.441][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.443][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:24.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:24.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.449][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:24.451][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:24.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.453][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:24.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:24.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.462][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.463][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.466][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.468][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.475][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:24.476][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:24.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.479][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.481][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:24.483][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.486][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.488][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:24.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.510][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.512][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.515][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.524][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:24.525][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:24.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.528][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:24.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:24.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.536][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:24.538][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:24.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.540][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.542][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:24.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:24.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.548][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:24.550][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:24.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.552][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.554][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:24.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:24.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:24.617][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-02-04 05:06:24.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:24.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:24.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:24.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:24.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:24.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:24.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:24.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:24.651][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-02-04 05:06:24.652][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:24.655][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-02-04 05:06:24.656][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:24.659][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-02-04 05:06:24.661][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:24.662][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:24.664][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:24.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:24.667][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:24.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:24.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:24.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:24.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:24.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:24.683][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.684][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.687][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.694][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:24.695][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:24.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.698][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.700][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:24.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:24.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.705][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:24.707][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:24.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.709][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.711][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:24.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:24.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.717][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:24.718][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:24.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.720][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.722][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.724][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.726][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.728][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:24.730][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:24.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.732][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.734][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:24.735][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.738][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.739][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:24.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.745][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.746][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.749][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:24.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.790][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:24.792][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:24.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.794][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:24.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:24.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.802][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:24.804][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:24.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.806][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.808][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:24.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:24.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.814][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:24.815][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:24.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.818][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:24.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:24.877][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-02-04 05:06:24.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:24.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:24.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:24.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:24.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:24.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:24.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:24.908][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[2025-02-04 05:06:24.910][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-02-04 05:06:24.911][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:24.913][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-02-04 05:06:24.915][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:24.917][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-02-04 05:06:24.919][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:24.920][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:24.922][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:24.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:24.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:24.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:24.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:24.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:24.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:24.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:24.940][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.942][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.944][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:24.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:24.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.952][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:24.953][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:24.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.956][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.958][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:24.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:24.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.963][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:24.965][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:24.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.968][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.969][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:24.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:24.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.975][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:24.977][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:24.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.979][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.981][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.983][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:24.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.986][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.987][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:24.989][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:24.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.991][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.993][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:24.994][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:24.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:24.997][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:24.999][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:25.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.004][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.005][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.008][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.015][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:25.016][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:25.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.019][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:25.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:25.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.027][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:25.028][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:25.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.031][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.032][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:25.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:25.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.045][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:25.047][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:25.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.050][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:25.109][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-02-04 05:06:25.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:25.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:25.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:25.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:25.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:25.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:25.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:25.140][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.DEBUG[2025-02-04 05:06:25.141][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-02-04 05:06:25.143][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:25.145][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-02-04 05:06:25.147][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:25.149][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-02-04 05:06:25.151][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:25.152][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:25.154][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:25.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:25.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:25.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:25.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:25.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:25.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:25.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:25.173][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.175][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.178][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.186][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:25.188][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:25.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.191][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.193][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:25.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:25.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.199][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:25.201][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:25.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.204][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.206][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:25.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:25.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.212][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:25.213][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:25.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.216][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:25.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:25.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.224][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.226][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.229][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.231][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.237][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:25.239][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:25.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.241][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.243][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:25.245][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.248][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.250][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:25.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.256][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.258][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.261][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.269][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:25.271][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:25.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.273][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.276][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:25.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:25.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.282][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:25.284][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:25.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.287][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.289][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:25.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:25.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.296][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:25.297][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:25.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.300][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.309][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:25.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:25.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:25.372][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-02-04 05:06:25.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.380][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:25.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:25.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:25.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:25.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:25.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:25.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:25.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:25.405][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-02-04 05:06:25.406][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:25.408][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-02-04 05:06:25.410][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:25.413][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-02-04 05:06:25.414][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:25.416][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:25.417][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:25.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:25.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:25.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:25.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:25.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:25.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:25.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:25.435][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.437][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.440][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.447][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:25.449][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:25.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.452][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.454][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:25.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:25.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.459][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:25.461][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:25.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.464][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:25.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:25.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.471][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:25.473][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:25.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.475][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.477][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:25.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:25.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.483][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.485][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.487][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.489][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.495][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:25.497][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:25.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.499][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.501][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:25.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.506][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.508][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:25.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.514][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.515][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.518][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.526][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:25.528][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:25.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.530][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.533][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:25.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:25.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.538][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:25.540][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:25.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.543][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.545][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:25.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:25.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.550][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:25.552][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:25.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.554][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.556][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:25.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:25.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:25.629][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-02-04 05:06:25.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:25.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:25.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:25.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:25.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:25.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:25.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:25.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:25.663][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-02-04 05:06:25.664][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:25.666][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-02-04 05:06:25.668][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:25.671][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-02-04 05:06:25.672][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:25.674][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:25.675][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:25.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:25.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:25.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:25.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:25.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:25.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:25.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:25.693][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.695][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.698][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.705][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:25.706][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:25.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.709][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.711][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:25.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:25.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.716][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:25.718][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:25.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.720][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.722][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:25.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:25.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.728][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:25.729][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:25.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.732][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:25.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:25.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.739][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.741][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.743][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.751][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:25.752][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:25.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.755][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.756][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:25.758][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.760][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.762][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:25.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.768][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.769][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.772][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:25.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.779][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:25.780][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:25.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.783][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:25.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:25.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.790][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:25.792][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:25.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.794][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.796][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:25.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:25.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.802][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:25.803][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:25.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.805][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.807][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:25.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:25.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:25.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:25.876][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-02-04 05:06:25.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:25.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:25.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:25.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:25.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:25.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:25.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:25.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:25.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:25.907][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-02-04 05:06:25.908][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:25.910][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-02-04 05:06:25.912][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:25.915][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-02-04 05:06:25.916][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:25.918][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:25.919][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:25.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:25.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:25.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:25.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:25.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:25.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:25.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:25.937][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.939][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.942][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:25.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:25.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.949][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:25.950][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:25.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.953][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.955][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:25.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:25.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.960][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:25.961][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:25.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.964][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.966][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:25.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:25.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.971][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:25.973][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:25.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.975][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:25.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:25.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.983][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.984][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.987][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:25.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:25.994][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:25.995][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:25.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:25.998][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.000][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:26.001][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.004][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.006][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:26.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.011][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.013][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.015][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.023][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:26.024][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:26.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.027][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.029][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:26.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:26.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.035][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:26.036][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:26.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.039][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.040][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:26.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:26.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.046][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:26.047][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:26.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.050][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.052][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:26.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:26.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:26.123][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-02-04 05:06:26.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:26.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:26.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:26.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:26.150][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:26.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:26.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:26.154][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[2025-02-04 05:06:26.156][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-02-04 05:06:26.157][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:26.159][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-02-04 05:06:26.161][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:26.164][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-02-04 05:06:26.165][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:26.167][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:26.169][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:26.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:26.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:26.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:26.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:26.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:26.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:26.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:26.187][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.188][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.191][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.198][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:26.199][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:26.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.202][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.204][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:26.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:26.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.210][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:26.211][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:26.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.214][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.216][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:26.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:26.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.221][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:26.223][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:26.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.225][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:26.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:26.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.233][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.234][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.237][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.244][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:26.246][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:26.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.249][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.250][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:26.252][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.254][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.256][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:26.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.262][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.263][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.266][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.274][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:26.275][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:26.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.278][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.280][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:26.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:26.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.286][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:26.288][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:26.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.291][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.293][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:26.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:26.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.299][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:26.300][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:26.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.303][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.305][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:26.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:26.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:26.376][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-02-04 05:06:26.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:26.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:26.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:26.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:26.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:26.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:26.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:26.408][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[2025-02-04 05:06:26.410][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-02-04 05:06:26.411][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:26.414][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-02-04 05:06:26.415][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:26.418][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-02-04 05:06:26.420][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:26.421][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:26.423][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:26.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:26.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:26.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:26.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:26.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:26.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:26.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:26.442][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.443][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.446][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.453][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:26.454][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:26.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.457][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.459][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:26.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:26.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.464][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:26.466][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:26.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.468][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.471][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:26.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:26.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.476][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:26.478][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:26.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.480][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:26.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:26.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.488][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.489][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.492][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.499][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:26.501][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:26.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.503][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.505][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:26.506][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.509][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.511][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:26.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.516][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.518][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.521][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.528][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:26.529][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:26.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.532][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:26.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:26.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.540][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:26.541][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:26.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.544][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.546][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:26.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:26.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.551][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:26.553][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:26.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.555][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.557][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:26.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:26.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:26.626][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-02-04 05:06:26.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:26.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:26.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:26.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:26.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:26.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:26.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:26.658][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.DEBUG[2025-02-04 05:06:26.659][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-02-04 05:06:26.660][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:26.663][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-02-04 05:06:26.664][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:26.667][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-02-04 05:06:26.669][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:26.671][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:26.672][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:26.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:26.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:26.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:26.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:26.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:26.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:26.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:26.690][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.691][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.694][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.701][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:26.702][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:26.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.705][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.706][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:26.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:26.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.719][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:26.721][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:26.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.723][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.726][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:26.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:26.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.732][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:26.733][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:26.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.736][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:26.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:26.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.744][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.746][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.749][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:26.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.756][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:26.758][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:26.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.761][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.763][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:26.764][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.767][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.769][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:26.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.775][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.777][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.780][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:26.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.788][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:26.789][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:26.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.792][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.794][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:26.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:26.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.800][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:26.802][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:26.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.805][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.807][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:26.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:26.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.813][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:26.815][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:26.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.818][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.819][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:26.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:26.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:26.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:26.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:26.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:26.909][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-02-04 05:06:26.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:26.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:26.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:26.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:26.957][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[2025-02-04 05:06:26.989][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:26.991][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-04 05:06:26.993][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:26.995][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-04 05:06:26.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.140][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[2025-02-04 05:06:27.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.507][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[2025-02-04 05:06:27.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.633][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.635][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[2025-02-04 05:06:27.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:27.763][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[2025-02-04 05:06:27.767][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:27.769][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-02-04 05:06:27.770][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:27.773][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-02-04 05:06:27.777][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[2025-02-04 05:06:27.781][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:27.783][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-02-04 05:06:27.785][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:27.787][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-02-04 05:06:27.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:27.804][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-02-04 05:06:27.806][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:27.808][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-02-04 05:06:27.810][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:27.812][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-02-04 05:06:27.814][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:27.816][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:27.818][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:27.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:27.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:27.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:27.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:27.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:27.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:27.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:27.835][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:27.837][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:27.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.839][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:27.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:27.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.846][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:27.848][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:27.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.850][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.852][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:27.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:27.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.857][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:27.859][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:27.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.870][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.871][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:27.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:27.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.877][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:27.878][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:27.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.881][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.882][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:27.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:27.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.888][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:27.889][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:27.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.892][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:27.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:27.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.899][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:27.900][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:27.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.903][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.905][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:27.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:27.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.910][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:27.912][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.914][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.916][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:27.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:27.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.921][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.923][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.925][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:27.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.932][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:27.934][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:27.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.936][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.938][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:27.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:27.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.944][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:27.945][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:27.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.947][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.949][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:27.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:27.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.955][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:27.957][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:27.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.959][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.961][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:27.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:27.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:27.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:27.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:27.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:27.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:27.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:27.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:27.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:27.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:27.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:27.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:27.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:27.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:27.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:27.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.068][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-02-04 05:06:28.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.135][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.DEBUG[2025-02-04 05:06:28.137][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-02-04 05:06:28.138][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:28.140][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-02-04 05:06:28.142][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:28.144][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-02-04 05:06:28.146][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:28.147][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:28.149][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:28.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.167][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.168][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.171][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.178][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:28.180][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:28.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.182][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.184][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:28.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:28.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.190][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:28.191][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:28.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.194][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.195][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:28.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:28.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.201][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:28.202][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:28.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.205][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:28.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:28.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:28.213][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:28.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.216][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:28.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:28.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.224][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:28.225][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:28.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.228][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.230][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:28.231][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:28.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.234][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.236][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:28.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:28.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.242][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.246][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.254][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:28.255][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:28.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.258][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.260][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:28.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:28.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.265][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:28.267][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:28.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.270][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.271][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:28.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:28.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.277][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:28.278][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:28.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.281][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.283][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:28.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:28.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:28.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:28.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:28.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:28.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:28.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:28.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:28.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:28.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.362][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-02-04 05:06:28.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.403][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[2025-02-04 05:06:28.433][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:28.435][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-04 05:06:28.437][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:28.442][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-04 05:06:28.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.655][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.TRACE[2025-02-04 05:06:28.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:28.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:28.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:28.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:28.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:28.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:28.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:28.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:28.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:28.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:28.996][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[2025-02-04 05:06:28.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:28.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.132][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[2025-02-04 05:06:29.136][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:29.138][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-04 05:06:29.139][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:29.141][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-04 05:06:29.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.157][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.TRACE[2025-02-04 05:06:29.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.229][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.TRACE[2025-02-04 05:06:29.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.300][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.311][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.415][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.TRACE[2025-02-04 05:06:29.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.540][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[2025-02-04 05:06:29.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:29.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.857][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-04 05:06:29.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-04 05:06:29.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-04 05:06:29.873][biodb::testThat]
biodb.INFO [2025-02-04 05:06:29.875][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-02-04 05:06:29.876][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:29.877][biodb::testThat]
biodb.TRACE[2025-02-04 05:06:29.882][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-04 05:06:29.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-04 05:06:29.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:29.933][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[2025-02-04 05:06:29.938][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:29.940][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-04 05:06:29.942][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:29.943][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-04 05:06:29.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:29.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:29.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:29.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:29.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:29.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:29.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:29.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:29.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:29.980][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[2025-02-04 05:06:29.984][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:29.986][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-04 05:06:29.988][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:29.990][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-04 05:06:29.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:29.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:29.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:30.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:30.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:30.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:30.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:30.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:30.056][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-04 05:06:30.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:30.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:30.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:30.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.082][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.084][private$selectFields]
biodb.TRACE[2025-02-04 05:06:30.085][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:30.086][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:30.099][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.101][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.103][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.105][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.107][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.108][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.111][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.112][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.113][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.115][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.119][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.120][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:30.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.151][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-04 05:06:30.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:30.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:30.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:30.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.179][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.180][private$selectFields]
biodb.TRACE[2025-02-04 05:06:30.181][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:30.183][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:30.184][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.185][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.189][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.191][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.192][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.195][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.196][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.197][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.199][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.200][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.203][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.204][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:30.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.222][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-04 05:06:30.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:30.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:30.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.236][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[2025-02-04 05:06:30.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.250][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.251][private$selectFields]
biodb.TRACE[2025-02-04 05:06:30.253][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:30.254][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:30.255][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.257][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.258][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.261][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.263][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.264][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.267][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.268][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.270][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.271][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.276][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.277][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:30.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.297][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-04 05:06:30.298][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-04 05:06:30.299][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-04 05:06:30.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:30.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:30.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:30.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.442][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[2025-02-04 05:06:30.446][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[2025-02-04 05:06:30.451][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:30.453][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-04 05:06:30.455][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:30.458][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-04 05:06:30.463][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[2025-02-04 05:06:30.468][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:30.470][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-04 05:06:30.472][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:30.475][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-04 05:06:30.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:30.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:30.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.493][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.TRACE[2025-02-04 05:06:30.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:30.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:30.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:30.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.527][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.TRACE[2025-02-04 05:06:30.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:30.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:30.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:30.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.559][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[2025-02-04 05:06:30.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:30.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:30.624][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-04 05:06:30.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:30.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:30.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.676][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.TRACE[2025-02-04 05:06:30.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.691][private$selectFields]
biodb.TRACE[2025-02-04 05:06:30.692][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:30.693][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:30.695][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.698][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.700][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.702][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.703][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.706][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.707][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.709][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.710][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.714][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.716][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:30.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.734][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-04 05:06:30.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:30.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:30.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:30.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.807][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.808][private$selectFields]
biodb.TRACE[2025-02-04 05:06:30.809][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:30.810][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:30.812][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.821][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.822][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.825][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.826][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.830][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.832][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.847][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.848][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.850][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.852][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.853][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:30.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.871][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-04 05:06:30.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:30.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:30.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:30.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:30.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:30.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:30.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:30.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.897][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.898][private$selectFields]
biodb.TRACE[2025-02-04 05:06:30.899][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:30.901][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:30.902][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.903][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.905][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.907][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.909][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.910][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.913][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.914][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.915][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:30.917][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.918][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.921][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.922][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:30.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:30.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.940][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-04 05:06:30.942][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-04 05:06:30.943][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-04 05:06:30.954][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-04 05:06:30.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-04 05:06:30.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-04 05:06:30.964][biodb::testThat]
biodb.INFO [2025-02-04 05:06:30.965][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-02-04 05:06:30.967][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:30.968][biodb::testThat]
biodb.TRACE[2025-02-04 05:06:30.972][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-04 05:06:30.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-04 05:06:30.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:30.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:30.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:30.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:31.019][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[2025-02-04 05:06:31.023][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:31.025][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-04 05:06:31.027][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:31.028][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-04 05:06:31.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.071][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[2025-02-04 05:06:31.076][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:31.077][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-04 05:06:31.079][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:31.081][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-04 05:06:31.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.143][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-04 05:06:31.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.157][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.TRACE[2025-02-04 05:06:31.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.169][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.170][private$selectFields]
biodb.TRACE[2025-02-04 05:06:31.171][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:31.173][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:31.174][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.177][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.179][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.180][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.182][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.184][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.187][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.188][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.192][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.193][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:31.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.211][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-04 05:06:31.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.236][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.238][private$selectFields]
biodb.TRACE[2025-02-04 05:06:31.239][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:31.240][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:31.241][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.243][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.244][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.247][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.248][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.250][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.252][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.254][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.255][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.256][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.258][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.260][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.261][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:31.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.279][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-04 05:06:31.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.301][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.TRACE[2025-02-04 05:06:31.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.313][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.314][private$selectFields]
biodb.TRACE[2025-02-04 05:06:31.315][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:31.316][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:31.318][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.319][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.320][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.323][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.324][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.326][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.328][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.329][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.331][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.332][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.333][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.336][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.337][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:31.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.354][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-04 05:06:31.356][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-04 05:06:31.357][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-04 05:06:31.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:31.408][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[2025-02-04 05:06:31.412][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:31.414][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-04 05:06:31.415][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:31.417][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-04 05:06:31.421][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[2025-02-04 05:06:31.426][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:31.428][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-04 05:06:31.429][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:31.431][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-04 05:06:31.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:31.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.531][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-04 05:06:31.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.559][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.561][private$selectFields]
biodb.TRACE[2025-02-04 05:06:31.562][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:31.563][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:31.565][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.566][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.567][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.570][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.571][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.573][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.576][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.577][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.578][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.580][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.581][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.584][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.585][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:31.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.603][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-04 05:06:31.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.630][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.631][private$selectFields]
biodb.TRACE[2025-02-04 05:06:31.632][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:31.633][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:31.635][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.636][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.638][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.640][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.641][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.643][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.645][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.647][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.648][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.650][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.651][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.654][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.655][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:31.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.673][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-04 05:06:31.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.699][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.700][private$selectFields]
biodb.TRACE[2025-02-04 05:06:31.702][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:31.703][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:31.704][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.706][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.707][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.710][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.711][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.715][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.717][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.718][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.719][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.721][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.724][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.725][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:31.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.744][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-04 05:06:31.745][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-04 05:06:31.746][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-04 05:06:31.758][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-04 05:06:31.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-04 05:06:31.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-04 05:06:31.776][biodb::testThat]
biodb.INFO [2025-02-04 05:06:31.778][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-02-04 05:06:31.779][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:31.781][biodb::testThat]
biodb.TRACE[2025-02-04 05:06:31.785][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-04 05:06:31.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-04 05:06:31.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:31.833][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[2025-02-04 05:06:31.837][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:31.839][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-04 05:06:31.841][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:31.843][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-04 05:06:31.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.879][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[2025-02-04 05:06:31.884][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:31.886][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-04 05:06:31.888][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:31.890][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-04 05:06:31.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:31.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:31.954][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-04 05:06:31.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:31.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:31.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:31.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:31.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:31.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:31.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:31.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.980][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.981][private$selectFields]
biodb.TRACE[2025-02-04 05:06:31.982][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:31.984][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:31.985][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.986][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.987][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.990][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:31.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:31.995][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:31.996][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.998][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:31.999][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.000][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.003][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.004][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:32.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.030][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-04 05:06:32.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:32.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:32.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:32.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:32.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:32.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:32.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:32.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.056][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.058][private$selectFields]
biodb.TRACE[2025-02-04 05:06:32.059][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:32.060][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:32.062][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.067][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.068][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.072][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.074][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.075][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.077][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.078][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.081][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.082][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:32.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.101][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-04 05:06:32.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:32.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:32.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:32.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:32.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:32.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:32.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:32.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.129][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.130][private$selectFields]
biodb.TRACE[2025-02-04 05:06:32.131][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:32.133][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:32.134][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.135][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.137][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.139][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.142][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.145][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.146][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.147][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.149][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.150][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.153][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.154][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:32.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.173][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-04 05:06:32.174][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-04 05:06:32.175][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-04 05:06:32.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:32.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:32.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:32.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:32.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:32.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:32.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:32.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:32.243][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[2025-02-04 05:06:32.247][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:32.249][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-04 05:06:32.250][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:32.260][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-04 05:06:32.264][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-04 05:06:32.269][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:32.270][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-04 05:06:32.272][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:32.274][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-04 05:06:32.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:32.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:32.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:32.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:32.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:32.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:32.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:32.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:32.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:32.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:32.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:32.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:32.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:32.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:32.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:32.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:32.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:32.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:32.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:32.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:32.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:32.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:32.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:32.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:32.370][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-04 05:06:32.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:32.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:32.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:32.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:32.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:32.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:32.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:32.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.398][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.399][private$selectFields]
biodb.TRACE[2025-02-04 05:06:32.400][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:32.402][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:32.403][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.406][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.409][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.410][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.411][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.414][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.415][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.417][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.418][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.420][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.422][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.424][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:32.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.443][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-04 05:06:32.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:32.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:32.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:32.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:32.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:32.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:32.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:32.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.472][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.473][private$selectFields]
biodb.TRACE[2025-02-04 05:06:32.475][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:32.476][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:32.477][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.480][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.483][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.484][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.486][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.488][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.490][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.491][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.493][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.494][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.497][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.498][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:32.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.527][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-04 05:06:32.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:32.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:32.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:32.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:32.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:32.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:32.542][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[2025-02-04 05:06:32.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.555][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.557][private$selectFields]
biodb.TRACE[2025-02-04 05:06:32.558][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-04 05:06:32.560][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-04 05:06:32.561][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.563][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.564][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.567][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.568][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.570][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.573][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.574][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.575][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-04 05:06:32.577][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.578][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.581][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.583][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-04 05:06:32.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.602][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-04 05:06:32.603][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-04 05:06:32.605][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-04 05:06:32.631][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-04 05:06:32.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-04 05:06:32.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-04 05:06:32.641][biodb::testThat]
biodb.INFO [2025-02-04 05:06:32.642][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-02-04 05:06:32.644][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:32.645][biodb::testThat]
biodb.DEBUG[2025-02-04 05:06:32.647][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-02-04 05:06:32.649][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:32.651][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-02-04 05:06:32.652][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:32.655][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-02-04 05:06:32.657][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:32.659][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:06:32.660][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:32.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:32.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:32.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:32.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:32.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:32.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:32.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:32.679][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:32.680][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:32.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.683][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:32.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:32.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.690][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:32.692][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:32.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.695][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.696][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:32.698][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:32.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.701][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.703][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:32.704][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:32.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.707][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.709][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:32.710][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:32.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.713][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.715][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:32.717][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:32.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.719][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.721][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:32.723][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:32.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.725][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.727][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.729][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.731][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.733][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:32.735][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:32.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.737][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.739][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:32.741][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:32.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.743][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.745][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:32.746][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:32.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.749][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:32.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:32.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:32.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:32.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:32.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:32.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:32.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:32.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:32.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:32.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:32.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:32.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:32.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:32.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:32.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:32.866][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-02-04 05:06:32.867][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-02-04 05:06:32.877][biodb::testThat]
biodb.INFO [2025-02-04 05:06:32.879][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-02-04 05:06:32.880][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:32.882][biodb::testThat]
biodb.DEBUG[2025-02-04 05:06:32.896][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-02-04 05:06:32.898][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-02-04 05:06:32.899][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-02-04 05:06:32.901][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-02-04 05:06:32.905][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-02-04 05:06:32.910][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-02-04 05:06:32.912][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:32.913][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-02-04 05:06:32.915][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-02-04 05:06:32.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:32.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:32.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:32.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:32.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:32.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:32.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:32.934][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:32.936][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:32.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.938][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:32.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:32.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.946][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:32.947][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:32.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.950][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.952][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:32.953][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:32.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.956][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.958][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:32.960][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:32.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.962][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.964][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:32.965][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:32.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.968][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.970][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:32.971][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:32.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.974][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.976][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:32.977][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:32.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.980][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.982][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.983][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:32.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.986][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.988][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:32.989][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:32.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:32.992][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:32.994][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:32.996][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:33.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.007][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.009][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:33.011][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:33.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.014][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:33.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:33.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:33.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:33.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:33.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:33.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:06:33.073][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.075][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.078][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.085][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:33.087][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:33.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.089][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.091][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:33.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:33.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.097][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:33.098][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:33.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.101][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.103][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:33.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:33.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.108][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:33.110][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:33.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.112][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:33.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:33.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.119][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:33.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:33.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.123][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:33.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:33.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.131][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:33.132][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:33.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.135][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.137][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:33.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:33.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.142][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:33.144][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:33.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.147][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.149][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:33.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:33.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:33.156][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:33.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.158][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:33.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:33.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.166][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:33.167][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:33.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.170][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.172][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:33.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:33.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.177][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:33.179][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:33.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.182][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.183][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:33.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:33.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.189][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:33.190][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:33.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.193][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.195][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:33.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:33.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:33.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:33.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:33.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:33.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:33.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:33.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.261][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.TRACE[2025-02-04 05:06:33.264][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.266][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.269][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.276][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:33.277][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:33.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.280][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.281][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:06:33.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:06:33.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.287][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:33.288][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:33.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.291][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:06:33.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:06:33.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.298][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:33.299][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:33.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.302][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:06:33.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:06:33.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.324][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:33.327][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:33.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.332][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.337][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:06:33.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:06:33.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.346][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:33.348][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:33.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.352][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.355][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:33.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:06:33.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.363][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:33.366][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:33.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.370][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.372][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:06:33.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:06:33.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.380][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:33.382][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:33.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.386][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:33.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:33.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.398][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:33.400][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:33.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.403][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:33.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:33.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.414][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:33.417][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:33.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.420][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.423][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:06:33.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:06:33.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.431][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:33.433][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:33.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.437][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.443][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:06:33.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:06:33.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:06:33.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:06:33.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:06:33.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:06:33.559][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-02-04 05:06:33.560][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-02-04 05:06:33.562][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-02-04 05:06:33.600][biodb::testThat]
biodb.INFO [2025-02-04 05:06:33.602][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-02-04 05:06:33.604][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:33.605][biodb::testThat]
biodb.INFO [2025-02-04 05:06:33.644][biodb::testThat]
biodb.INFO [2025-02-04 05:06:33.646][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-02-04 05:06:33.647][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:33.649][biodb::testThat]
biodb.INFO [2025-02-04 05:06:33.662][biodb::testThat]
biodb.INFO [2025-02-04 05:06:33.663][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-02-04 05:06:33.665][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:33.666][biodb::testThat]
biodb.DEBUG[2025-02-04 05:06:33.670][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[2025-02-04 05:06:33.702][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:33.704][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-02-04 05:06:33.706][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:33.709][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-02-04 05:06:33.725][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:06:33.727][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:06:33.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.730][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:06:33.731][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:33.733][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:06:33.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:06:33.736][ef$get] fields variable is a list.
biodb.INFO [2025-02-04 05:06:33.738][biodb::testThat]
biodb.INFO [2025-02-04 05:06:33.739][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-02-04 05:06:33.740][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:33.742][biodb::testThat]
biodb.ERROR[2025-02-04 05:06:33.762][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-02-04 05:06:33.787][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-02-04 05:06:33.806][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-04 05:06:33.808][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-04 05:06:33.810][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-04 05:06:33.812][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-04 05:06:33.813][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:33.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:33.816][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:33.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:33.819][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.820][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.INFO [2025-02-04 05:06:33.845][biodb::testContext]
biodb.INFO [2025-02-04 05:06:33.848][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-04 05:06:33.850][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-02-04 05:06:33.852][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-04 05:06:33.853][biodb::testContext]
biodb.INFO [2025-02-04 05:06:33.856][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-02-04 05:06:33.859][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-02-04 05:06:33.864][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:33.866][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-04 05:06:33.867][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-04 05:06:33.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.873][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-04 05:06:33.874][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-04 05:06:33.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.878][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[2025-02-04 05:06:33.880][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-04 05:06:33.881][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-04 05:06:33.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.887][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-04 05:06:33.888][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-04 05:06:33.890][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-04 05:06:33.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.894][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[2025-02-04 05:06:33.896][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-04 05:06:33.897][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-04 05:06:33.899][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-04 05:06:33.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.904][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-04 05:06:33.905][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-04 05:06:33.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.909][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[2025-02-04 05:06:33.911][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-04 05:06:33.912][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-04 05:06:33.914][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-04 05:06:33.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.919][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-04 05:06:33.921][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-04 05:06:33.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.926][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-04 05:06:33.927][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-04 05:06:33.929][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-04 05:06:33.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.934][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-04 05:06:33.935][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-04 05:06:33.937][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-04 05:06:33.938][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-04 05:06:33.940][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-04 05:06:33.941][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-04 05:06:33.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.945][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[2025-02-04 05:06:33.946][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-04 05:06:33.948][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-04 05:06:33.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.953][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-04 05:06:33.955][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-04 05:06:33.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.960][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-04 05:06:33.961][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-04 05:06:33.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.966][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-04 05:06:33.968][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-04 05:06:33.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.973][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-04 05:06:33.975][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-04 05:06:33.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.980][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-04 05:06:33.981][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-04 05:06:33.986][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-04 05:06:33.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:33.991][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-04 05:06:33.993][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-04 05:06:33.994][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-04 05:06:33.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:33.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:33.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.000][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-04 05:06:34.003][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.004][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-04 05:06:34.006][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.008][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:34.009][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.011][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.012][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.014][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.015][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-04 05:06:34.017][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:34.018][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.019][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-04 05:06:34.021][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:34.022][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.023][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.025][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:34.025][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:34.025][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:34.025][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-04 05:06:34.025][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-04 05:06:34.027][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:34.028][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:34.029][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:34.031][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:34.032][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:34.034][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:34.035][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.037][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.038][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:34.039][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:34.041][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.043][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.044][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-04 05:06:34.047][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.049][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-04 05:06:34.050][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.051][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:34.053][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.054][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.056][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.057][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.058][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-04 05:06:34.060][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:34.061][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.062][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-04 05:06:34.064][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:34.065][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.066][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.068][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:34.068][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:34.068][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:34.068][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-04 05:06:34.068][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-04 05:06:34.069][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:34.071][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:34.072][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:34.073][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:34.075][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:34.076][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:34.077][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.079][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.080][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:34.081][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:34.083][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.084][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.086][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-04 05:06:34.088][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.098][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-04 05:06:34.100][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.102][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:34.103][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.105][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.106][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.107][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.109][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-04 05:06:34.110][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:34.111][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.113][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-04 05:06:34.114][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:34.116][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.117][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.118][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.120][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:34.121][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:34.122][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:34.124][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:34.125][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:34.126][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:34.128][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.129][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.130][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:34.132][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:34.133][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.134][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.136][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-04 05:06:34.138][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.140][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-04 05:06:34.141][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.143][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:34.144][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.146][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.147][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.148][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.150][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-04 05:06:34.151][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:34.153][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.154][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-04 05:06:34.156][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:34.158][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.159][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.161][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.162][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:34.164][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:34.165][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:34.166][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:34.168][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:34.169][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:34.170][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.172][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.173][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:34.174][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:34.176][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.177][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:34.179][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:34.180][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.220][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[2025-02-04 05:06:34.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.241][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[2025-02-04 05:06:34.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.255][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[2025-02-04 05:06:34.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.262][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[2025-02-04 05:06:34.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.269][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[2025-02-04 05:06:34.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.282][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[2025-02-04 05:06:34.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.298][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-04 05:06:34.300][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-04 05:06:34.302][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-04 05:06:34.304][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-04 05:06:34.306][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-04 05:06:34.309][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-04 05:06:34.311][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-04 05:06:34.313][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-04 05:06:34.315][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-04 05:06:34.317][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-04 05:06:34.319][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-04 05:06:34.321][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-04 05:06:34.323][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-04 05:06:34.333][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-04 05:06:34.338][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-04 05:06:34.341][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-04 05:06:34.343][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-04 05:06:34.346][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-04 05:06:34.375][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-04 05:06:34.383][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-04 05:06:34.388][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-04 05:06:34.392][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-04 05:06:34.395][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-04 05:06:34.398][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-04 05:06:34.400][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-04 05:06:34.403][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-04 05:06:34.405][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-04 05:06:34.408][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-04 05:06:34.411][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-04 05:06:34.413][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-04 05:06:34.416][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-04 05:06:34.418][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-04 05:06:34.421][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-04 05:06:34.423][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-04 05:06:34.426][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-04 05:06:34.428][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-04 05:06:34.431][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-04 05:06:34.433][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-04 05:06:34.436][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-04 05:06:34.438][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-04 05:06:34.440][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-04 05:06:34.443][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-04 05:06:34.445][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-04 05:06:34.448][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-04 05:06:34.450][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-04 05:06:34.453][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-04 05:06:34.456][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-04 05:06:34.459][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-04 05:06:34.462][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-04 05:06:34.464][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-04 05:06:34.467][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-04 05:06:34.470][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-04 05:06:34.473][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-04 05:06:34.476][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-04 05:06:34.479][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-04 05:06:34.482][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-04 05:06:34.485][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-04 05:06:34.487][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-04 05:06:34.490][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-04 05:06:34.493][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-04 05:06:34.496][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-04 05:06:34.499][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-04 05:06:34.501][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-04 05:06:34.504][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-04 05:06:34.507][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-04 05:06:34.510][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-04 05:06:34.513][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-04 05:06:34.516][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-04 05:06:34.519][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-04 05:06:34.522][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-04 05:06:34.524][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-04 05:06:34.527][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-04 05:06:34.529][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-04 05:06:34.532][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-04 05:06:34.535][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-04 05:06:34.538][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-04 05:06:34.541][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-04 05:06:34.543][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-04 05:06:34.546][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-04 05:06:34.548][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-04 05:06:34.551][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-04 05:06:34.553][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-04 05:06:34.556][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-04 05:06:34.559][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-04 05:06:34.561][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-02-04 05:06:34.563][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:34.565][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.568][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.581][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[2025-02-04 05:06:34.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.611][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[2025-02-04 05:06:34.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.620][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[2025-02-04 05:06:34.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.678][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[2025-02-04 05:06:34.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.698][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.DEBUG[2025-02-04 05:06:34.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.736][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[2025-02-04 05:06:34.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:34.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:34.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:34.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:34.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:34.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:34.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:34.747][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-04 05:06:34.750][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-04 05:06:34.752][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.754][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.755][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.757][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:34.759][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.760][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.762][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.763][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-04 05:06:34.765][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-04 05:06:34.766][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:34.767][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.769][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-04 05:06:34.770][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:34.772][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-04 05:06:34.772][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-04 05:06:34.772][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-04 05:06:34.772][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-04 05:06:34.772][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-04 05:06:34.772][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-04 05:06:34.772][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-04 05:06:34.772][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-04 05:06:34.772][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-04 05:06:34.772][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-04 05:06:34.772][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-04 05:06:34.773][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:34.775][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:34.775][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:34.775][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:34.776][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-04 05:06:34.778][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:34.779][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:34.780][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:34.781][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:34.783][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:34.784][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:34.785][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-04 05:06:34.785][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-04 05:06:34.787][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:34.788][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:34.790][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:34.791][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-04 05:06:34.791][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-04 05:06:34.793][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-04 05:06:34.795][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-04 05:06:34.797][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-04 05:06:34.800][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-04 05:06:34.802][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-04 05:06:34.804][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-04 05:06:34.809][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-04 05:06:34.811][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-04 05:06:34.812][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-04 05:06:34.814][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-04 05:06:34.816][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-04 05:06:34.818][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-04 05:06:34.820][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-04 05:06:34.821][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-04 05:06:34.823][biodb::testThat]
biodb.INFO [2025-02-04 05:06:34.824][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-02-04 05:06:34.826][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:34.827][biodb::testThat]
biodb.DEBUG[2025-02-04 05:06:34.833][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.INFO [2025-02-04 05:06:34.838][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2025-02-04 05:06:34.840][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-04 05:06:34.842][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-04 05:06:34.844][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2025-02-04 05:06:36.424][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2025-02-04 05:06:37.972][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.INFO [2025-02-04 05:06:37.975][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2025-02-04 05:06:37.977][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2025-02-04 05:06:37.998][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2025-02-04 05:06:38.003][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-04 05:06:38.026][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-04 05:06:38.027][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-04 05:06:38.063][private$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[2025-02-04 05:06:39.889][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[2025-02-04 05:06:41.991][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-04 05:06:41.994][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2025-02-04 05:06:41.999][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2025-02-04 05:06:42.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:42.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:42.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:42.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:42.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:42.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:42.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:42.018][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[2025-02-04 05:06:42.022][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-04 05:06:42.024][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-04 05:06:42.026][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-04 05:06:42.843][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-04 05:06:43.672][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-04 05:06:43.675][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2025-02-04 05:06:43.680][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2025-02-04 05:06:43.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:43.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:43.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:43.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:43.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:43.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:43.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:43.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:43.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:43.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:43.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:43.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:43.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:43.736][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[2025-02-04 05:06:43.744][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-04 05:06:43.748][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:43.751][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-02-04 05:06:43.752][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:43.754][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-02-04 05:06:43.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:43.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:43.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:43.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:43.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:43.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:43.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:43.773][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-04 05:06:43.777][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:43.779][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-02-04 05:06:43.781][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:43.783][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-02-04 05:06:43.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:43.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:43.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:43.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:43.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:43.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:43.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:43.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:43.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:43.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:43.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:43.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:43.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:43.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:43.818][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-04 05:06:43.823][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:43.825][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-02-04 05:06:43.827][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:43.829][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-02-04 05:06:43.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:43.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:43.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:43.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:43.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:43.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:43.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:43.861][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-04 05:06:43.865][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:43.867][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-02-04 05:06:43.869][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:43.870][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-02-04 05:06:43.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:43.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:43.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:43.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:43.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:43.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:43.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:43.888][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-04 05:06:43.892][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-04 05:06:43.893][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-04 05:06:43.896][private$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[2025-02-04 05:06:44.727][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[2025-02-04 05:06:45.572][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-04 05:06:45.580][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2025-02-04 05:06:45.590][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2025-02-04 05:06:45.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:45.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:45.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:45.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:45.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:45.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:45.612][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.INFO [2025-02-04 05:06:45.623][biodb::testThat]
biodb.INFO [2025-02-04 05:06:45.625][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-02-04 05:06:45.626][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:45.628][biodb::testThat]
biodb.DEBUG[2025-02-04 05:06:45.634][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[2025-02-04 05:06:45.640][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-04 05:06:45.642][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-04 05:06:45.645][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-04 05:06:46.549][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-04 05:06:47.364][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-04 05:06:47.368][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2025-02-04 05:06:47.376][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2025-02-04 05:06:47.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:47.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:47.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:47.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:47.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:47.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:47.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:47.404][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-04 05:06:47.409][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-04 05:06:47.411][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-04 05:06:47.414][private$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[2025-02-04 05:06:50.750][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[2025-02-04 05:06:51.576][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-04 05:06:51.580][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2025-02-04 05:06:51.588][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2025-02-04 05:06:51.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:51.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:51.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:51.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:51.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:51.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.612][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.INFO [2025-02-04 05:06:51.621][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-04 05:06:51.623][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-04 05:06:51.625][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-04 05:06:51.626][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-04 05:06:51.627][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:51.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:51.630][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:51.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:51.632][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-04 05:06:51.639][biodb::testContext]
biodb.INFO [2025-02-04 05:06:51.640][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-04 05:06:51.642][biodb::testContext] Test context - Test web services
biodb.INFO [2025-02-04 05:06:51.643][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-04 05:06:51.644][biodb::testContext]
biodb.INFO [2025-02-04 05:06:51.647][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-02-04 05:06:51.649][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-02-04 05:06:51.655][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:51.656][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-04 05:06:51.658][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-04 05:06:51.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.663][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-04 05:06:51.664][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-04 05:06:51.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.668][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[2025-02-04 05:06:51.669][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-04 05:06:51.671][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-04 05:06:51.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.676][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-04 05:06:51.872][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-04 05:06:51.874][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-04 05:06:51.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.877][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[2025-02-04 05:06:51.878][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-04 05:06:51.880][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-04 05:06:51.881][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-04 05:06:51.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.885][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-04 05:06:51.887][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-04 05:06:51.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.890][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.DEBUG[2025-02-04 05:06:51.891][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-04 05:06:51.893][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-04 05:06:51.894][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-04 05:06:51.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.899][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-04 05:06:51.900][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-04 05:06:51.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.905][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-04 05:06:51.907][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-04 05:06:51.908][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-04 05:06:51.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.913][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-04 05:06:51.914][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-04 05:06:51.916][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-04 05:06:51.917][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-04 05:06:51.918][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-04 05:06:51.919][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-04 05:06:51.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.924][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-04 05:06:51.925][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-04 05:06:51.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.930][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-04 05:06:51.931][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-04 05:06:51.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.936][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-04 05:06:51.937][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-04 05:06:51.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.942][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-04 05:06:51.943][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-04 05:06:51.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.948][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-04 05:06:51.949][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-04 05:06:51.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.954][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-04 05:06:51.955][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-04 05:06:51.960][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-04 05:06:51.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.965][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-04 05:06:51.966][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-04 05:06:51.967][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-04 05:06:51.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:51.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:51.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:51.972][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-04 05:06:51.975][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:51.976][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-04 05:06:51.977][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:51.978][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:51.980][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:51.981][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:51.982][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:51.983][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:51.985][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-04 05:06:51.986][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:51.987][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:51.989][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-04 05:06:51.990][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:51.991][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:51.992][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:51.994][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:51.994][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:51.994][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:51.994][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-04 05:06:51.994][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-04 05:06:51.995][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:51.996][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:51.997][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:51.998][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:52.000][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:52.001][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:52.002][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.003][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.005][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:52.006][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:52.007][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.008][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.010][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-04 05:06:52.012][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.013][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-04 05:06:52.015][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.016][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:52.017][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.018][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.020][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.021][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.022][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-04 05:06:52.024][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:52.025][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.026][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-04 05:06:52.027][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:52.029][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.030][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.031][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:52.031][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:52.031][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:52.031][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-04 05:06:52.031][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-04 05:06:52.032][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:52.034][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:52.035][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:52.036][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:52.037][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:52.038][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:52.040][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.041][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.042][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:52.043][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:52.045][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.046][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.047][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-04 05:06:52.050][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.051][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-04 05:06:52.052][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.054][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:52.055][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.056][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.057][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.059][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.060][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-04 05:06:52.061][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:52.062][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.064][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-04 05:06:52.065][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:52.066][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.067][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.068][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.070][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:52.071][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:52.072][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:52.073][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:52.074][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:52.075][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:52.077][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.078][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.079][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:52.080][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:52.081][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.082][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.084][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-04 05:06:52.086][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.087][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-04 05:06:52.088][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.096][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:52.097][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.098][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.100][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.101][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.102][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-04 05:06:52.103][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:52.105][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.106][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-04 05:06:52.107][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:52.108][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.110][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.111][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.112][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:52.113][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:52.115][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:52.116][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:52.117][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:52.118][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:52.119][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.120][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.122][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:52.123][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:52.124][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.125][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:52.127][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:52.128][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.129][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[2025-02-04 05:06:52.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.135][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.DEBUG[2025-02-04 05:06:52.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.151][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[2025-02-04 05:06:52.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.157][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[2025-02-04 05:06:52.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.163][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[2025-02-04 05:06:52.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.168][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[2025-02-04 05:06:52.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.174][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[2025-02-04 05:06:52.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.185][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[2025-02-04 05:06:52.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.217][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[2025-02-04 05:06:52.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.223][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[2025-02-04 05:06:52.224][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-04 05:06:52.226][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-04 05:06:52.228][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-04 05:06:52.230][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-04 05:06:52.231][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-04 05:06:52.233][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-04 05:06:52.235][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-04 05:06:52.236][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-04 05:06:52.238][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-04 05:06:52.240][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-04 05:06:52.242][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-04 05:06:52.243][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-04 05:06:52.245][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-04 05:06:52.247][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-04 05:06:52.249][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-04 05:06:52.250][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-04 05:06:52.252][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-04 05:06:52.254][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-04 05:06:52.256][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-04 05:06:52.258][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-04 05:06:52.260][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-04 05:06:52.261][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-04 05:06:52.263][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-04 05:06:52.265][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-04 05:06:52.267][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-04 05:06:52.269][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-04 05:06:52.270][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-04 05:06:52.272][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-04 05:06:52.274][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-04 05:06:52.276][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-04 05:06:52.278][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-04 05:06:52.280][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-04 05:06:52.281][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-04 05:06:52.283][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-04 05:06:52.285][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-04 05:06:52.287][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-04 05:06:52.289][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-04 05:06:52.290][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-04 05:06:52.292][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-04 05:06:52.294][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-04 05:06:52.296][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-04 05:06:52.298][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-04 05:06:52.300][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-04 05:06:52.301][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-04 05:06:52.310][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-04 05:06:52.311][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-04 05:06:52.313][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-04 05:06:52.315][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-04 05:06:52.317][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-04 05:06:52.319][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-04 05:06:52.320][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-04 05:06:52.322][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-04 05:06:52.324][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-04 05:06:52.326][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-04 05:06:52.327][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-04 05:06:52.329][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-04 05:06:52.331][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-04 05:06:52.333][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-04 05:06:52.335][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-04 05:06:52.336][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-04 05:06:52.338][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-04 05:06:52.340][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-04 05:06:52.342][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-04 05:06:52.344][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-04 05:06:52.345][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-04 05:06:52.347][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-04 05:06:52.349][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-04 05:06:52.351][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-04 05:06:52.352][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-04 05:06:52.354][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-04 05:06:52.356][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-04 05:06:52.358][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-04 05:06:52.359][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-04 05:06:52.361][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-04 05:06:52.363][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-04 05:06:52.365][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-04 05:06:52.366][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-04 05:06:52.368][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-04 05:06:52.370][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-04 05:06:52.372][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-04 05:06:52.374][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-04 05:06:52.375][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-04 05:06:52.377][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-04 05:06:52.379][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-04 05:06:52.381][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-02-04 05:06:52.382][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:52.383][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.386][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.387][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[2025-02-04 05:06:52.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.416][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[2025-02-04 05:06:52.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.444][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.DEBUG[2025-02-04 05:06:52.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.525][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[2025-02-04 05:06:52.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:52.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:52.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:52.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:52.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:52.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:52.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:52.587][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-04 05:06:52.590][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-04 05:06:52.593][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.594][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.595][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.597][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:52.598][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.600][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.601][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.602][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-04 05:06:52.604][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-04 05:06:52.605][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:52.606][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.608][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-04 05:06:52.609][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:52.611][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-04 05:06:52.611][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-04 05:06:52.611][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-04 05:06:52.611][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-04 05:06:52.611][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-04 05:06:52.611][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-04 05:06:52.611][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-04 05:06:52.611][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-04 05:06:52.611][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-04 05:06:52.611][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-04 05:06:52.611][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-04 05:06:52.613][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:52.614][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:52.614][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:52.614][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:52.616][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-04 05:06:52.618][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:52.619][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:52.621][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:52.622][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:52.624][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:52.625][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:52.627][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-04 05:06:52.627][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-04 05:06:52.628][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:52.630][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:52.631][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:52.633][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-04 05:06:52.633][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-04 05:06:52.635][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-04 05:06:52.638][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-04 05:06:52.640][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-04 05:06:52.642][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-04 05:06:52.644][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-04 05:06:52.646][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-04 05:06:52.651][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-04 05:06:52.653][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-04 05:06:52.655][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-04 05:06:52.658][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-04 05:06:52.660][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-04 05:06:52.662][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-04 05:06:52.664][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-04 05:06:52.666][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-04 05:06:52.668][biodb::testThat]
biodb.INFO [2025-02-04 05:06:52.670][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-02-04 05:06:52.671][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:52.673][biodb::testThat]
biodb.DEBUG[2025-02-04 05:06:52.678][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-04 05:06:52.685][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:52.687][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-04 05:06:52.689][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:52.691][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-04 05:06:52.696][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[2025-02-04 05:06:52.700][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-04 05:06:52.702][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-04 05:06:52.704][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-04 05:06:53.987][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-04 05:06:54.813][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-04 05:06:54.816][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2025-02-04 05:06:54.821][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2025-02-04 05:06:54.833][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-04 05:06:54.835][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-04 05:06:54.836][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-04 05:06:54.837][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-04 05:06:54.839][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:54.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:54.841][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:54.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:54.843][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-04 05:06:54.850][biodb::testContext]
biodb.INFO [2025-02-04 05:06:54.852][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-04 05:06:54.853][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-02-04 05:06:54.854][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-04 05:06:54.856][biodb::testContext]
biodb.INFO [2025-02-04 05:06:54.859][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-02-04 05:06:54.861][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-02-04 05:06:54.866][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:54.867][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-04 05:06:54.868][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-04 05:06:54.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.873][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-04 05:06:54.875][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-04 05:06:54.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.880][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-04 05:06:54.881][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-04 05:06:54.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.886][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-04 05:06:54.887][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-04 05:06:54.889][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-04 05:06:54.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.894][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-04 05:06:54.895][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-04 05:06:54.896][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-04 05:06:54.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.900][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[2025-02-04 05:06:54.902][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-04 05:06:54.903][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-04 05:06:54.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.908][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-04 05:06:54.909][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-04 05:06:54.911][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-04 05:06:54.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.916][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-04 05:06:54.918][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-04 05:06:54.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.923][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-04 05:06:54.924][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-04 05:06:54.926][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-04 05:06:54.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.931][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-04 05:06:54.932][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-04 05:06:54.934][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-04 05:06:54.935][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-04 05:06:54.937][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-04 05:06:54.938][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-04 05:06:54.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.954][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-04 05:06:54.955][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-04 05:06:54.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.960][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-04 05:06:54.961][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-04 05:06:54.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.966][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-04 05:06:54.967][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-04 05:06:54.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.972][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-04 05:06:54.973][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-04 05:06:54.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.978][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-04 05:06:54.980][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-04 05:06:54.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.984][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-04 05:06:54.986][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-04 05:06:54.991][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-04 05:06:54.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:54.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:54.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:54.996][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-04 05:06:54.997][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-04 05:06:54.999][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-04 05:06:55.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.004][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-04 05:06:55.007][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.008][self$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[2025-02-04 05:06:55.009][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.011][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:55.012][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.014][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.015][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.016][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.018][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-04 05:06:55.019][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:55.020][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.022][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-04 05:06:55.023][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:55.025][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.026][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.027][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:55.027][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:55.027][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:55.027][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-04 05:06:55.027][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-04 05:06:55.028][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:55.030][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:55.031][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:55.032][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:55.034][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:55.035][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:55.036][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.037][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.039][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:55.040][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:55.041][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.042][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.044][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-04 05:06:55.046][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.048][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-04 05:06:55.049][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.051][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:55.052][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.053][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.055][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.056][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.057][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-04 05:06:55.059][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:55.060][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.061][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-04 05:06:55.063][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:55.064][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.066][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.067][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:55.067][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:55.067][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:55.067][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-04 05:06:55.067][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-04 05:06:55.069][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:55.070][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:55.071][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:55.073][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:55.074][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:55.075][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:55.077][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.079][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.080][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:55.081][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:55.083][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.084][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.086][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-04 05:06:55.089][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.091][self$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[2025-02-04 05:06:55.092][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.094][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:55.095][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.096][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.098][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.099][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.101][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-04 05:06:55.102][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:55.104][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.105][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-04 05:06:55.107][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:55.108][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.110][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.111][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.113][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:55.114][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:55.115][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:55.117][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:55.118][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:55.120][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:55.121][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.123][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.124][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:55.125][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:55.127][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.128][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.130][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-04 05:06:55.133][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.134][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-04 05:06:55.136][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.137][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:55.139][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.141][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.142][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.144][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.145][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-04 05:06:55.147][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:55.148][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.150][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-04 05:06:55.151][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:55.153][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.155][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.156][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.158][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-04 05:06:55.159][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:55.161][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:55.162][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:55.164][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:55.165][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:55.167][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.168][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.170][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:55.171][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:55.173][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.175][self$setPropertyValue]
biodb.DEBUG[2025-02-04 05:06:55.177][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:55.178][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.224][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[2025-02-04 05:06:55.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.236][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[2025-02-04 05:06:55.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.241][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[2025-02-04 05:06:55.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.253][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[2025-02-04 05:06:55.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.291][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-04 05:06:55.293][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-04 05:06:55.295][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-04 05:06:55.296][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-04 05:06:55.298][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-04 05:06:55.300][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-04 05:06:55.302][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-04 05:06:55.304][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-04 05:06:55.305][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-04 05:06:55.307][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-04 05:06:55.309][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-04 05:06:55.311][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-04 05:06:55.312][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-04 05:06:55.314][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-04 05:06:55.316][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-04 05:06:55.318][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-04 05:06:55.320][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-04 05:06:55.321][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-04 05:06:55.323][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-04 05:06:55.325][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-04 05:06:55.327][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-04 05:06:55.329][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-04 05:06:55.330][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-04 05:06:55.332][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-04 05:06:55.334][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-04 05:06:55.336][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-04 05:06:55.338][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-04 05:06:55.339][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-04 05:06:55.341][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-04 05:06:55.343][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-04 05:06:55.345][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-04 05:06:55.346][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-04 05:06:55.348][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-04 05:06:55.350][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-04 05:06:55.352][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-04 05:06:55.354][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-04 05:06:55.355][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-04 05:06:55.357][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-04 05:06:55.359][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-04 05:06:55.361][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-04 05:06:55.363][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-04 05:06:55.365][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-04 05:06:55.367][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-04 05:06:55.369][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-04 05:06:55.372][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-04 05:06:55.374][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-04 05:06:55.376][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-04 05:06:55.378][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-04 05:06:55.380][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-04 05:06:55.382][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-04 05:06:55.384][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-04 05:06:55.386][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-04 05:06:55.388][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-04 05:06:55.391][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-04 05:06:55.393][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-04 05:06:55.395][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-04 05:06:55.397][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-04 05:06:55.399][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-04 05:06:55.401][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-04 05:06:55.403][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-04 05:06:55.405][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-04 05:06:55.407][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-04 05:06:55.409][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-04 05:06:55.411][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-04 05:06:55.413][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-04 05:06:55.423][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-04 05:06:55.425][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-04 05:06:55.427][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-04 05:06:55.429][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-04 05:06:55.431][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-04 05:06:55.433][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-04 05:06:55.435][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-04 05:06:55.437][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-04 05:06:55.439][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-04 05:06:55.441][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-04 05:06:55.443][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-04 05:06:55.445][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-04 05:06:55.447][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-04 05:06:55.449][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-04 05:06:55.451][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-04 05:06:55.453][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-04 05:06:55.455][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-04 05:06:55.457][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-04 05:06:55.459][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-04 05:06:55.461][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-02-04 05:06:55.462][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-04 05:06:55.464][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.466][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.467][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[2025-02-04 05:06:55.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.476][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[2025-02-04 05:06:55.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.484][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[2025-02-04 05:06:55.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.501][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[2025-02-04 05:06:55.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.518][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[2025-02-04 05:06:55.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.558][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[2025-02-04 05:06:55.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.566][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[2025-02-04 05:06:55.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-04 05:06:55.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.621][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-04 05:06:55.623][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-04 05:06:55.626][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.628][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.629][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.631][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-04 05:06:55.632][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.634][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.635][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.637][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-04 05:06:55.638][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-04 05:06:55.639][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-04 05:06:55.641][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.642][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-04 05:06:55.644][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-04 05:06:55.645][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-04 05:06:55.645][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-04 05:06:55.645][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-04 05:06:55.645][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-04 05:06:55.645][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-04 05:06:55.645][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-04 05:06:55.645][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-04 05:06:55.645][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-04 05:06:55.645][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-04 05:06:55.645][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-04 05:06:55.645][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-04 05:06:55.647][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-04 05:06:55.648][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-04 05:06:55.648][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-04 05:06:55.648][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-04 05:06:55.650][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-04 05:06:55.651][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:55.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:55.667][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-04 05:06:55.669][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-04 05:06:55.670][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-04 05:06:55.672][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-04 05:06:55.673][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-04 05:06:55.673][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-04 05:06:55.674][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-04 05:06:55.675][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-04 05:06:55.677][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-04 05:06:55.678][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-04 05:06:55.678][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-04 05:06:55.680][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-04 05:06:55.682][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-04 05:06:55.684][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-04 05:06:55.686][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-04 05:06:55.688][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-04 05:06:55.691][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-04 05:06:55.695][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-04 05:06:55.697][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-04 05:06:55.699][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-04 05:06:55.701][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-04 05:06:55.703][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-04 05:06:55.704][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-04 05:06:55.706][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-04 05:06:55.708][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-04 05:06:55.710][biodb::testThat]
biodb.INFO [2025-02-04 05:06:55.711][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-02-04 05:06:55.712][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-04 05:06:55.714][biodb::testThat]
biodb.DEBUG[2025-02-04 05:06:55.718][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-04 05:06:55.723][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:55.726][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-04 05:06:55.727][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:55.729][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-04 05:06:55.734][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-04 05:06:55.739][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-04 05:06:55.741][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-02-04 05:06:55.743][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-04 05:06:55.745][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-02-04 05:06:55.751][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-02-04 05:06:55.753][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-04 05:06:55.755][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-02-04 05:06:55.757][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-04 05:06:55.758][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-04 05:06:55.760][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-04 05:06:55.762][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-04 05:06:55.763][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-04 05:06:55.764][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-04 05:06:55.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:06:55.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:06:55.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:06:55.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:06:55.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:06:55.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:06:55.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-04 05:06:55.784][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2025-02-04 05:06:55.788][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-04 05:06:55.789][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-04 05:06:55.791][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2025-02-04 05:06:59.111][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2025-02-04 05:07:00.533][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-04 05:07:00.537][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2025-02-04 05:07:00.543][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2025-02-04 05:07:00.548][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2025-02-04 05:07:00.551][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-04 05:07:00.554][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-04 05:07:00.556][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-04 05:07:00.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-04 05:07:00.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:07:00.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:07:00.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:07:00.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:07:00.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:07:00.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-04 05:07:00.585][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:07:00.588][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:07:00.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.592][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:07:00.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:07:00.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.603][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:07:00.604][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:07:00.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.607][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.610][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-04 05:07:00.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-04 05:07:00.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.616][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:07:00.618][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:07:00.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.620][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.623][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-04 05:07:00.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-04 05:07:00.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.629][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-04 05:07:00.631][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-04 05:07:00.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.634][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.636][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-04 05:07:00.638][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-04 05:07:00.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.641][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.643][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:07:00.645][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:07:00.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.647][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.650][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:07:00.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-04 05:07:00.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.656][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:07:00.658][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:07:00.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.661][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.663][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-04 05:07:00.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-04 05:07:00.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.670][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:07:00.672][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:07:00.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.675][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:07:00.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-04 05:07:00.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.685][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:07:00.699][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:07:00.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.702][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.704][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-04 05:07:00.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-04 05:07:00.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.709][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:07:00.710][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:07:00.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.713][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.715][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-04 05:07:00.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-04 05:07:00.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.720][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:07:00.721][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:07:00.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.724][ef$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.726][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-04 05:07:00.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-04 05:07:00.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:07:00.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:07:00.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:07:00.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:07:00.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:07:00.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:07:00.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-04 05:07:00.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-04 05:07:00.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:07:00.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:07:00.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:07:00.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:07:00.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:07:00.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:07:00.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:07:00.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:07:00.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:07:00.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:07:00.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-04 05:07:00.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-04 05:07:00.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-04 05:07:00.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-04 05:07:00.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-04 05:07:00.829][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-02-04 05:07:00.833][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-04 05:07:00.835][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-04 05:07:00.836][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-04 05:07:00.837][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-04 05:07:00.838][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-04 05:07:00.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-04 05:07:00.841][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-04 05:07:00.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-04 05:07:00.843][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-04 05:07:00.844][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 359 ]
>
> proc.time()
user system elapsed
22.289 1.151 51.918
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 1.106 | 0.099 | 5.359 | |
| ChebiEntry | 0.210 | 0.040 | 0.251 | |