Pierrick Roger
| Snapshot Date: 2025-01-30 13:00 -0500 (Thu, 30 Jan 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 2025-02-03 12:06 -0500 (Mon, 03 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" | 4746 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4494 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4517 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4469 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4400 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 202/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.12.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the biodbChebi package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbChebi |
| Version: 1.12.0 |
| Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings biodbChebi_1.12.0.tar.gz |
| StartedAt: 2025-01-30 23:50:28 -0500 (Thu, 30 Jan 2025) |
| EndedAt: 2025-01-30 23:55:57 -0500 (Thu, 30 Jan 2025) |
| EllapsedTime: 328.9 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings biodbChebi_1.12.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/biodbChebi.Rcheck'
* using R version 4.4.2 (2024-10-31 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 13.3.0
GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* 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 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 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 4.25 2.5 146.2
* 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: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-bioc/R/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 ucrt) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64
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 [2025-01-30 23:54:21.631][biodb::testContext]
biodb.INFO [2025-01-30 23:54:21.692][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-30 23:54:21.693][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-30 23:54:21.695][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-30 23:54:21.696][biodb::testContext]
biodb.INFO [2025-01-30 23:54:21.739][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-30 23:54:21.742][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-30 23:54:21.862][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:54:21.863][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-30 23:54:21.879][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-30 23:54:21.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:21.884][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-30 23:54:21.908][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-30 23:54:21.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:21.915][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-30 23:54:21.917][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-30 23:54:21.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:21.925][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-30 23:54:21.927][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-30 23:54:21.929][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-30 23:54:21.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.934][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.DEBUG[2025-01-30 23:54:21.935][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-30 23:54:21.936][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-30 23:54:21.937][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-30 23:54:21.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:21.942][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-30 23:54:21.943][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-30 23:54:21.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:21.948][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-30 23:54:21.949][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-30 23:54:21.950][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-30 23:54:21.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:21.954][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-30 23:54:21.956][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-30 23:54:21.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.959][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[2025-01-30 23:54:21.960][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-30 23:54:21.961][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-30 23:54:21.963][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-30 23:54:21.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:21.967][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-30 23:54:21.968][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-30 23:54:21.969][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-30 23:54:21.971][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-30 23:54:21.972][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-30 23:54:21.973][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-30 23:54:21.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:21.978][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-30 23:54:21.979][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-30 23:54:21.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:21.983][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-30 23:54:21.984][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-30 23:54:21.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:21.989][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-30 23:54:21.990][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-30 23:54:21.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:21.995][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-30 23:54:21.996][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-30 23:54:21.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:21.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:21.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.000][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-30 23:54:22.002][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-30 23:54:22.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.006][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-30 23:54:22.007][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-30 23:54:22.011][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-30 23:54:22.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.015][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-30 23:54:22.017][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-30 23:54:22.018][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-30 23:54:22.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.024][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-30 23:54:22.052][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.066][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-30 23:54:22.067][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.069][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:54:22.070][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.071][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.078][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.079][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.080][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-30 23:54:22.082][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:54:22.083][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.084][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-30 23:54:22.085][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:54:22.086][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.087][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.089][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:54:22.089][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:54:22.089][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:54:22.089][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-30 23:54:22.089][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-30 23:54:22.090][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:54:22.091][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:54:22.092][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:54:22.093][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:54:22.094][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:54:22.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:54:22.097][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.098][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.099][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:54:22.100][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:54:22.101][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.102][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.104][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-30 23:54:22.106][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.107][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-30 23:54:22.108][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.109][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:54:22.110][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.112][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.113][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.114][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.115][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-30 23:54:22.117][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:54:22.118][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.119][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-30 23:54:22.120][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:54:22.121][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.123][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.124][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:54:22.124][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:54:22.124][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:54:22.124][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-30 23:54:22.124][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-30 23:54:22.125][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:54:22.126][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:54:22.127][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:54:22.128][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:54:22.130][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:54:22.131][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:54:22.132][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.133][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.134][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:54:22.135][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:54:22.136][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.138][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.139][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-30 23:54:22.141][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.142][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-30 23:54:22.144][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.145][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:54:22.146][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.147][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.148][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.149][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.151][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-30 23:54:22.152][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:54:22.153][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.154][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-30 23:54:22.155][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:54:22.157][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.158][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.159][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.160][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:54:22.161][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:54:22.162][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:54:22.164][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:54:22.165][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:54:22.166][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:54:22.167][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.168][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.169][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:54:22.170][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:54:22.172][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.173][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.174][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-30 23:54:22.176][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.177][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-30 23:54:22.178][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.180][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:54:22.181][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.182][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.183][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.184][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.185][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-30 23:54:22.187][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:54:22.188][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.189][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-30 23:54:22.190][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:54:22.191][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.193][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.194][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.195][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:54:22.196][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:54:22.197][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:54:22.198][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:54:22.200][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:54:22.201][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:54:22.202][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.203][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.204][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:54:22.205][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:54:22.206][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.208][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:54:22.211][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:54:22.212][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.213][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[2025-01-30 23:54:22.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.218][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[2025-01-30 23:54:22.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.224][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[2025-01-30 23:54:22.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.234][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[2025-01-30 23:54:22.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.261][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[2025-01-30 23:54:22.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.277][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[2025-01-30 23:54:22.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.310][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-30 23:54:22.315][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-30 23:54:22.316][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-30 23:54:22.318][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-30 23:54:22.319][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-30 23:54:22.321][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-30 23:54:22.323][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-30 23:54:22.324][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-30 23:54:22.326][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-30 23:54:22.327][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-30 23:54:22.329][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-30 23:54:22.331][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-30 23:54:22.332][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-30 23:54:22.334][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-30 23:54:22.335][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-30 23:54:22.337][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-30 23:54:22.338][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-30 23:54:22.340][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-30 23:54:22.341][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-30 23:54:22.343][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-30 23:54:22.344][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-30 23:54:22.346][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-30 23:54:22.348][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-30 23:54:22.349][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-30 23:54:22.351][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-30 23:54:22.352][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-30 23:54:22.354][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-30 23:54:22.355][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-30 23:54:22.357][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-30 23:54:22.359][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-30 23:54:22.360][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-30 23:54:22.362][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-30 23:54:22.363][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-30 23:54:22.365][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-30 23:54:22.366][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-30 23:54:22.368][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-30 23:54:22.370][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-30 23:54:22.371][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-30 23:54:22.373][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-30 23:54:22.374][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-30 23:54:22.376][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-30 23:54:22.377][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-30 23:54:22.379][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-30 23:54:22.381][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-30 23:54:22.382][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-30 23:54:22.384][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-30 23:54:22.385][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-30 23:54:22.387][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-30 23:54:22.388][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-30 23:54:22.390][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-30 23:54:22.391][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-30 23:54:22.393][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-30 23:54:22.395][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-30 23:54:22.396][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-30 23:54:22.398][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-30 23:54:22.399][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-30 23:54:22.401][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-30 23:54:22.402][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-30 23:54:22.404][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-30 23:54:22.406][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-30 23:54:22.407][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-30 23:54:22.409][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-30 23:54:22.410][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-30 23:54:22.412][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-30 23:54:22.413][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-30 23:54:22.415][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-30 23:54:22.417][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-30 23:54:22.418][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-30 23:54:22.420][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-30 23:54:22.421][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-30 23:54:22.423][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-30 23:54:22.424][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-30 23:54:22.426][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-30 23:54:22.428][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-30 23:54:22.429][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-30 23:54:22.431][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-30 23:54:22.432][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-30 23:54:22.434][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-30 23:54:22.435][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-30 23:54:22.437][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-30 23:54:22.438][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-30 23:54:22.440][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-30 23:54:22.441][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-30 23:54:22.476][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-30 23:54:22.479][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-30 23:54:22.482][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:54:22.483][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.485][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.518][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[2025-01-30 23:54:22.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.525][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[2025-01-30 23:54:22.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.571][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[2025-01-30 23:54:22.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.619][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[2025-01-30 23:54:22.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:54:22.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:22.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:22.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:22.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:22.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:22.630][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-30 23:54:22.653][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-30 23:54:22.657][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.658][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.660][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.661][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:54:22.662][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.664][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.665][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.666][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-30 23:54:22.667][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-30 23:54:22.668][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:54:22.670][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.671][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-30 23:54:22.672][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:54:22.673][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-30 23:54:22.673][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-30 23:54:22.673][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-30 23:54:22.673][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-30 23:54:22.673][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-30 23:54:22.673][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-30 23:54:22.673][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-30 23:54:22.673][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-30 23:54:22.673][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-30 23:54:22.673][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-30 23:54:22.673][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-30 23:54:22.675][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-30 23:54:22.676][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:54:22.676][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:54:22.676][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:54:22.677][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-30 23:54:22.678][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:54:22.679][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:54:22.681][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:54:22.682][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:54:22.683][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:54:22.684][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:54:22.685][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:22.685][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-30 23:54:22.686][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:54:22.687][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:54:22.689][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-30 23:54:22.690][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-30 23:54:22.690][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-30 23:54:22.696][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-30 23:54:22.697][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-30 23:54:22.699][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-30 23:54:22.701][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-30 23:54:22.703][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-30 23:54:22.704][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-30 23:54:22.830][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-30 23:54:22.832][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-30 23:54:22.835][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-30 23:54:22.839][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-30 23:54:22.843][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-30 23:54:22.844][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-30 23:54:22.846][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-30 23:54:22.847][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-30 23:54:22.858][biodb::testThat]
biodb.INFO [2025-01-30 23:54:22.859][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-01-30 23:54:22.860][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:54:22.862][biodb::testThat]
biodb.TRACE[2025-01-30 23:54:22.940][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-01-30 23:54:22.943][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:22.946][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:22.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:22.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:22.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:23.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:23.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:23.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:23.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:23.120][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.122][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.124][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.169][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:23.171][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:23.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.173][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.196][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:23.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:23.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.202][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:23.203][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:23.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.206][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.207][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:23.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:23.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.212][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:23.213][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:23.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.216][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:23.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:23.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.222][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:23.223][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:23.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.226][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:23.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:23.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.232][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.234][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.236][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.238][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.243][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:23.244][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.288][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.289][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:23.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.294][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.296][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.298][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.304][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:23.306][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:23.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.308][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.310][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:23.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:23.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.315][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:23.316][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.318][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.320][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:23.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.325][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:23.326][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:23.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.328][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:23.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:23.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:23.411][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-01-30 23:54:23.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:23.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:23.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:23.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:23.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.453][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:23.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:23.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.459][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:23.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:23.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.475][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-30 23:54:23.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-30 23:54:23.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.480][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-30 23:54:23.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-30 23:54:23.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.485][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-30 23:54:23.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-30 23:54:23.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.490][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-30 23:54:23.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-30 23:54:23.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.665][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.666][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.669][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:23.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:23.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.700][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.702][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.704][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:23.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.728][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:23.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:23.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.733][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:23.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:23.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.738][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:23.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:23.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.743][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:23.745][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:23.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.747][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.748][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:23.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:23.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:23.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:23.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.785][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:23.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:23.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.789][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:23.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:23.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.794][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:23.796][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:23.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.798][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.800][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:23.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:23.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.835][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.837][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.839][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:23.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.880][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.881][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.884][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:23.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.900][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:23.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:23.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.905][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:23.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:23.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.910][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:23.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:23.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.915][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:23.916][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:23.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.918][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.920][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:23.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:23.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.934][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.939][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.944][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.949][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.950][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.953][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.954][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:23.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.973][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.979][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.983][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.988][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.990][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.992][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:23.993][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:23.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:23.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.008][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:24.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:24.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.013][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:24.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:24.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.018][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:24.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:24.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.023][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:24.024][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:24.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.027][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.033][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:24.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:24.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.058][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.062][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.064][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.066][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.067][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:24.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:24.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:24.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:24.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.100][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:24.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:24.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.105][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:24.106][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:24.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.109][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:24.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:24.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.130][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:24.132][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:24.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.134][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.146][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:24.148][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:24.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.150][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.169][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:24.171][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:24.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.173][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.184][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:24.185][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:24.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.187][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.194][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.195][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.197][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.205][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:24.207][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:24.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.209][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.228][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:24.230][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:24.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.232][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.246][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:24.248][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:24.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.250][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.256][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-30 23:54:24.258][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:24.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.260][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.273][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:24.274][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:24.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.281][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.292][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:24.293][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:24.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.296][ef$get] fields variable is a list.
biodb.INFO [2025-01-30 23:54:24.320][biodb::testThat]
biodb.INFO [2025-01-30 23:54:24.321][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-30 23:54:24.322][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:54:24.324][biodb::testThat]
biodb.DEBUG[2025-01-30 23:54:24.337][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-01-30 23:54:24.343][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:24.350][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-01-30 23:54:24.351][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:54:24.355][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-01-30 23:54:24.356][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:24.377][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:24.379][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:24.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:24.382][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:24.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:24.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:24.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:24.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:24.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:24.404][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:24.405][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:24.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.408][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:24.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:24.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.429][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:24.430][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:24.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.433][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.434][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:24.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:24.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.439][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:24.440][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:24.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.443][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.450][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:24.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:24.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.455][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:24.457][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:24.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.459][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:24.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:24.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.465][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.467][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.469][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:24.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.476][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:24.477][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:24.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.479][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.481][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:24.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:24.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.486][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:24.487][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:24.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.489][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.491][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:24.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:24.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.496][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:24.497][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:24.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.500][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:24.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:24.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.506][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:24.507][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:24.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.510][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:24.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:24.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.517][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:24.518][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:24.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.520][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.522][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:24.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:24.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.527][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:24.528][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:24.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.531][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.532][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:24.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:24.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:24.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:24.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:24.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:24.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:24.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:24.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:24.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:24.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:24.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:24.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:24.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:24.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:24.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:24.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:24.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:24.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:24.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:24.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:24.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:24.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:24.587][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-01-30 23:54:24.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-30 23:54:24.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-30 23:54:24.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-30 23:54:24.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-30 23:54:24.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-30 23:54:24.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-30 23:54:24.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-30 23:54:24.636][biodb::testThat]
biodb.INFO [2025-01-30 23:54:24.637][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-30 23:54:24.638][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:54:24.639][biodb::testThat]
biodb.TRACE[2025-01-30 23:54:24.643][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:24.644][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:24.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.647][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:24.649][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-01-30 23:54:24.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:24.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:24.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.694][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:24.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:24.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:24.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:24.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:24.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:24.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:24.707][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-01-30 23:54:24.711][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-30 23:54:24.729][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:54:24.743][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-30 23:54:24.745][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:54:24.748][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-30 23:54:24.780][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[2025-01-30 23:54:24.785][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:24.786][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:24.788][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:54:25.431][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:54:25.922][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:25.925][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-01-30 23:54:25.941][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-01-30 23:54:25.944][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-01-30 23:54:25.973][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:25.975][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:25.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:25.977][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:25.978][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:25.980][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:25.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:25.982][ef$get] fields variable is a list.
biodb.INFO [2025-01-30 23:54:25.992][biodb::testThat]
biodb.INFO [2025-01-30 23:54:25.993][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-01-30 23:54:25.995][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:54:25.996][biodb::testThat]
biodb.TRACE[2025-01-30 23:54:26.031][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:26.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:26.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:26.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:26.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.042][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:26.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:26.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:26.108][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:54:26.112][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:54:26.114][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-30 23:54:26.115][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:54:26.119][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-01-30 23:54:26.169][biodb::testThat]
biodb.INFO [2025-01-30 23:54:26.171][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-01-30 23:54:26.172][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:54:26.174][biodb::testThat]
biodb.TRACE[2025-01-30 23:54:26.201][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:26.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:26.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:26.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:26.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:26.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:26.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:26.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:26.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:26.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:26.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:26.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:26.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.230][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-30 23:54:26.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-30 23:54:26.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.235][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-30 23:54:26.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-30 23:54:26.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.240][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-30 23:54:26.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-30 23:54:26.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.245][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-30 23:54:26.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-30 23:54:26.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.265][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:26.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:26.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:26.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:26.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.275][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:26.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:26.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.280][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:26.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:26.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:26.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:26.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:26.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:26.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.295][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-30 23:54:26.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-30 23:54:26.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.300][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-30 23:54:26.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-30 23:54:26.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.310][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-30 23:54:26.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-30 23:54:26.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:26.315][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-30 23:54:26.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-30 23:54:26.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:26.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-30 23:54:26.334][biodb::testThat]
biodb.INFO [2025-01-30 23:54:26.335][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-30 23:54:26.337][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:54:26.338][biodb::testThat]
biodb.INFO [2025-01-30 23:54:26.353][biodb::testThat]
biodb.INFO [2025-01-30 23:54:26.354][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-30 23:54:26.356][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:54:26.357][biodb::testThat]
biodb.INFO [2025-01-30 23:54:26.375][biodb::testThat]
biodb.INFO [2025-01-30 23:54:26.377][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-30 23:54:26.378][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:54:26.379][biodb::testThat]
biodb.DEBUG[2025-01-30 23:54:26.384][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-01-30 23:54:27.372][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-01-30 23:54:28.797][biodb::testThat]
biodb.INFO [2025-01-30 23:54:28.799][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-30 23:54:28.800][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:54:28.802][biodb::testThat]
biodb.DEBUG[2025-01-30 23:54:29.159][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[2025-01-30 23:54:29.529][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:29.531][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:29.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:29.535][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:29.537][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:29.539][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:29.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:29.543][ef$get] fields variable is a list.
biodb.INFO [2025-01-30 23:54:29.547][biodb::testThat]
biodb.INFO [2025-01-30 23:54:29.549][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-01-30 23:54:29.551][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:54:29.553][biodb::testThat]
biodb.TRACE[2025-01-30 23:54:29.601][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:29.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:29.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:29.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:29.610][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:29.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:29.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:29.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:29.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:29.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:29.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:29.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:29.751][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:54:29.755][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:54:29.757][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-30 23:54:29.759][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:54:29.761][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-30 23:54:29.846][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:54:29.850][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:54:29.852][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-30 23:54:29.854][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:54:29.856][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-01-30 23:54:29.890][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-30 23:54:29.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-30 23:54:29.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:29.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:29.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:29.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:29.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:29.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:29.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:29.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:29.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:29.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:29.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:29.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:29.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:29.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:29.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:29.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:29.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:29.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:29.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:29.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:29.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:29.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:29.982][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:54:30.008][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:30.010][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:30.036][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:54:30.353][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:54:30.666][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:30.670][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2025-01-30 23:54:30.675][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2025-01-30 23:54:30.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:30.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:30.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:30.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:30.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:30.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:30.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:30.818][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-01-30 23:54:30.861][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:30.863][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-01-30 23:54:30.865][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:30.867][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:30.868][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:30.870][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:30.871][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:30.872][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:30.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:30.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:30.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:30.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:30.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:30.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:30.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:30.897][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-01-30 23:54:30.912][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:30.914][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:30.916][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-01-30 23:54:31.278][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-01-30 23:54:31.592][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:31.595][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-01-30 23:54:31.600][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-01-30 23:54:31.604][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-01-30 23:54:31.607][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:31.609][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:31.610][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:31.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:31.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:31.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:31.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:31.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:31.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:31.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:31.629][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:31.630][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:31.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.633][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:31.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:31.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.640][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:31.641][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:31.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.643][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.645][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:31.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:31.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.650][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:31.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:31.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.654][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.656][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:31.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:31.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.661][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:31.662][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:31.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.665][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:31.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:31.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.671][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:31.673][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:31.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.675][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:31.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:31.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.681][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:31.683][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:31.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.685][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.687][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:31.688][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:31.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.690][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.692][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:31.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:31.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.697][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:31.698][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:31.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.860][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:31.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:31.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.870][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:31.872][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:31.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.876][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:31.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:31.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.886][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:31.888][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:31.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.892][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.894][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:31.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:31.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.902][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:31.903][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:31.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.907][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.909][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:31.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:31.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:31.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:31.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:31.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:31.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:31.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:31.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:31.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:31.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:31.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:31.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:31.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:31.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:31.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:31.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:31.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:31.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:31.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:31.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:31.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:31.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:31.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:31.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:31.995][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-01-30 23:54:32.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:32.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:32.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:32.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:32.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:32.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:32.035][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[2025-01-30 23:54:32.041][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:32.042][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:32.044][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:54:32.370][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:54:32.687][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:32.690][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2025-01-30 23:54:32.696][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2025-01-30 23:54:32.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:32.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:32.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:32.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:32.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:32.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:32.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:32.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:32.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:32.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:32.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:32.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:32.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:32.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:32.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:32.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:32.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:32.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:32.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:32.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:32.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:32.777][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-01-30 23:54:32.779][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:32.781][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-01-30 23:54:32.783][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:32.785][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:32.787][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:32.789][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:32.790][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:32.792][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:32.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:32.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:32.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:32.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:32.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:32.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:32.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:32.827][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-01-30 23:54:32.831][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:32.832][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:32.834][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-01-30 23:54:33.192][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-01-30 23:54:33.511][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:33.514][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-01-30 23:54:33.520][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-01-30 23:54:33.526][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-01-30 23:54:33.530][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:33.532][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:33.534][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:33.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:33.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:33.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:33.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:33.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:33.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:33.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:33.554][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:33.555][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:33.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.558][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:33.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:33.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.565][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:33.567][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:33.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.570][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.571][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:33.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:33.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.577][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:33.579][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:33.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.581][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.583][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:33.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:33.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.589][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:33.591][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:33.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.593][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:33.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:33.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.601][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:33.602][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:33.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.605][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:33.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:33.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.613][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:33.615][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:33.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.618][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.621][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:33.623][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.627][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.630][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:33.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.639][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:33.642][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:33.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.646][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:33.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:33.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.658][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:33.661][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:33.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.665][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:33.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:33.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.677][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:33.679][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:33.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.681][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.683][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:33.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:33.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.689][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:33.691][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:33.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.693][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.695][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:33.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:33.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:33.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:33.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:33.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:33.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:33.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:33.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:33.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:33.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:33.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:33.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:33.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:33.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:33.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:33.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:33.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:33.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:33.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:33.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:33.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:33.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:33.766][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-01-30 23:54:33.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:33.814][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:54:33.818][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:54:33.820][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-30 23:54:33.822][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:54:33.824][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-30 23:54:33.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:33.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:33.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:33.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:33.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:33.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:33.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:33.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:33.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:33.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:33.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:33.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:33.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:33.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:33.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:33.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:33.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:33.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:33.886][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-01-30 23:54:33.887][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:33.889][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-01-30 23:54:33.891][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:33.893][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:33.894][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:33.895][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:33.897][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:33.898][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:33.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:33.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:33.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:33.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:33.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:33.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:33.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:33.925][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2025-01-30 23:54:33.928][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:33.930][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:33.931][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2025-01-30 23:54:34.281][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2025-01-30 23:54:34.594][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:34.597][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2025-01-30 23:54:34.602][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2025-01-30 23:54:34.606][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2025-01-30 23:54:34.609][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:34.610][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:34.612][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:34.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:34.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:34.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:34.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:34.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:34.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:34.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:34.814][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:34.817][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:34.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.820][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:34.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:34.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.831][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:34.833][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:34.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.836][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.839][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:34.841][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:34.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.844][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.847][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:34.849][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:34.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.853][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.856][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:34.858][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:34.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.862][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.865][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:34.867][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:34.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.870][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.873][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:34.875][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:34.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.878][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.881][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:34.883][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:34.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.887][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.889][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:34.891][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:34.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.895][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:34.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:34.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.906][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:34.908][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:34.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.911][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.914][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:34.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:34.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.922][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:34.924][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:34.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.927][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:34.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:34.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:34.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:34.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:34.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:34.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:34.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:34.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:34.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:34.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:34.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:34.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:34.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:34.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:34.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:34.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:34.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:34.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:34.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:34.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:35.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:35.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:35.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:35.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:35.009][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-01-30 23:54:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:35.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:35.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:35.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:35.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:35.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:35.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:35.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:35.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:35.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:35.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:35.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:35.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:35.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:35.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:35.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:35.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:35.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:35.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:35.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:35.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:35.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:35.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:35.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:35.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:35.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:35.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:35.081][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-01-30 23:54:35.083][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:35.086][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-01-30 23:54:35.088][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:35.089][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:35.090][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:35.092][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:35.093][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:35.094][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:35.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:35.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:35.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:35.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:35.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:35.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:35.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:35.122][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2025-01-30 23:54:35.127][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:35.129][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:35.131][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2025-01-30 23:54:35.488][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2025-01-30 23:54:35.809][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:35.811][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2025-01-30 23:54:35.817][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2025-01-30 23:54:35.821][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2025-01-30 23:54:35.824][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:35.825][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:35.827][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:35.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:35.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:35.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:38.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:38.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:38.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:38.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:38.655][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:38.656][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:38.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.659][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:38.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:38.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.669][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:38.671][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:38.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.677][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.681][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:38.682][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:38.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.688][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:38.695][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:38.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.700][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.702][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:38.705][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:38.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.710][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.711][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:38.713][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:38.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.719][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.724][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:38.725][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:38.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.728][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.730][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:38.731][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:38.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.736][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.738][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:38.745][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:38.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.752][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:38.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:38.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.759][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:38.760][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:38.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.762][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.764][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:38.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:38.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.768][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:38.770][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:38.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.772][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:38.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:38.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:38.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:38.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:38.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:38.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:38.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:38.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:38.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:38.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:38.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:38.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:38.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:38.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:38.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:38.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:38.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:38.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:38.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:38.836][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-01-30 23:54:38.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:38.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:38.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:38.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:38.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:38.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:38.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:38.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:38.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:38.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:38.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:38.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:38.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:38.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:38.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:38.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:38.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:38.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:38.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:38.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:38.875][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-01-30 23:54:38.876][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:38.878][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-01-30 23:54:38.880][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:38.881][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:38.883][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:38.884][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:38.885][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:38.886][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:38.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:38.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:38.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:38.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:38.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:38.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:38.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:38.903][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2025-01-30 23:54:38.906][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:38.907][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:38.909][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2025-01-30 23:54:39.252][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2025-01-30 23:54:39.579][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:39.582][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2025-01-30 23:54:39.588][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2025-01-30 23:54:39.592][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2025-01-30 23:54:39.594][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:39.596][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:39.597][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:39.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:39.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:39.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:39.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:39.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:39.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:39.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:39.879][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:39.880][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:39.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.883][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:39.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:39.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.889][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:39.890][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:39.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.893][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.894][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:39.895][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:39.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.898][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.899][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:39.900][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:39.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.903][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.904][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:39.905][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:39.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.908][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.909][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:39.910][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:39.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.913][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.914][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:39.915][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:39.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.917][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.919][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:39.920][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:39.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.922][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.924][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:39.925][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:39.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.927][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:39.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:39.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.934][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:39.935][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:39.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.938][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.939][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:39.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:39.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.944][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:39.945][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:39.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.947][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:39.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:39.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:39.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:39.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:39.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:39.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:39.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:39.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:39.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:39.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:39.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:39.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:39.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:39.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:39.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:39.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:39.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:39.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:39.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:39.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:39.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:39.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:39.997][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-01-30 23:54:39.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:40.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:40.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:40.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:40.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:40.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:40.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:40.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:40.037][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-01-30 23:54:40.038][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:40.040][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-01-30 23:54:40.041][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:40.043][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:40.044][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:40.045][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:40.047][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:40.048][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:40.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:40.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:40.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:40.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:40.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:40.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:40.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:40.064][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2025-01-30 23:54:40.067][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:40.068][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:40.070][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2025-01-30 23:54:40.473][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2025-01-30 23:54:40.808][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:40.810][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2025-01-30 23:54:40.815][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2025-01-30 23:54:40.819][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2025-01-30 23:54:40.821][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:40.823][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:40.825][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:40.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:40.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:40.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:40.836][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:40.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:40.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:40.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:40.842][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:40.844][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:40.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.846][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:40.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:40.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.852][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:40.854][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:40.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.857][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.858][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:40.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:40.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.863][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:40.864][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:40.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.867][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.868][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:40.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:40.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.883][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:40.884][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:40.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.886][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:40.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:40.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.893][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:40.894][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:40.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.896][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:40.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:40.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.903][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:40.904][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:40.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.906][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.908][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:40.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:40.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.912][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:40.914][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.916][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:40.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:40.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.922][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:40.924][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:40.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.926][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:40.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:40.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.932][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:40.934][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:40.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.936][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.938][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:40.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:40.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.943][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:40.944][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:40.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.946][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.948][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:40.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:40.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.952][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:40.954][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:40.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.956][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.957][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:40.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:40.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:40.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:40.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:40.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:40.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:40.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:40.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:40.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:40.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:40.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:40.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:40.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:40.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:40.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:40.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:40.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:40.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:40.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:40.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:41.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:41.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:41.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:41.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:41.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:41.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:41.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:41.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:41.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:41.011][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-01-30 23:54:41.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:41.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:41.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:41.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:41.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:41.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:41.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:41.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:41.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:41.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:41.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:41.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:41.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:41.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:41.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:41.035][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:41.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:41.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:41.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:41.039][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-01-30 23:54:41.041][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:41.042][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-01-30 23:54:41.044][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:41.045][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:41.047][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:41.048][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:41.049][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:41.050][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:41.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:41.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:41.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:41.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:41.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:41.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:41.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:41.067][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2025-01-30 23:54:41.070][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:41.071][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:41.073][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2025-01-30 23:54:41.597][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2025-01-30 23:54:41.925][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:41.928][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2025-01-30 23:54:41.933][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2025-01-30 23:54:41.938][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2025-01-30 23:54:41.941][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:41.943][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:41.944][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:41.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:41.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:41.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:41.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:41.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:41.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:41.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:41.964][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:41.966][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:41.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:41.969][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:41.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:41.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:41.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:41.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:41.980][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:41.981][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:41.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:41.984][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:41.986][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:41.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:41.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:41.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:41.991][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:41.992][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:41.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:41.995][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:41.996][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:41.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:41.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.002][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:42.003][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:42.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.005][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:42.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:42.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.012][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:42.013][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:42.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.015][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:42.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:42.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.022][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:42.023][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:42.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.026][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.027][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:42.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:42.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.032][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:42.034][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:42.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.036][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.038][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:42.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:42.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.043][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:42.044][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:42.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.046][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:42.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:42.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.053][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:42.055][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:42.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.057][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:42.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:42.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.064][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:42.065][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:42.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.067][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.069][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:42.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:42.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.074][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:42.075][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:42.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.078][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.079][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:42.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:42.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:42.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:42.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:42.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:42.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:42.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:42.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:42.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:42.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:42.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:42.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:42.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:42.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:42.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:42.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:42.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:42.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:42.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:42.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:42.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:42.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:42.159][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-01-30 23:54:42.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:42.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:42.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:42.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:42.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:42.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:42.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:42.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:42.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:42.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:42.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:42.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:42.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:42.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:42.214][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-01-30 23:54:42.216][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:42.218][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-01-30 23:54:42.219][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:42.221][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:42.222][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:42.223][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:42.225][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:42.226][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:42.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:42.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:42.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:42.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:42.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:42.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:42.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:42.255][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2025-01-30 23:54:42.258][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:42.259][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:42.262][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2025-01-30 23:54:42.619][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2025-01-30 23:54:42.929][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:42.932][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2025-01-30 23:54:42.937][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2025-01-30 23:54:42.940][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2025-01-30 23:54:42.943][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:42.945][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:42.946][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:42.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:42.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:42.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:42.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:42.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:42.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:42.960][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[2025-01-30 23:54:42.962][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:42.964][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:42.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.966][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:42.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:42.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.972][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:42.973][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:42.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.976][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.977][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:42.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:42.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.982][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:42.983][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:42.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.985][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.987][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:42.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:42.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.992][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:42.993][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:42.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:42.995][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:42.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:42.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:42.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.001][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:43.003][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:43.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.005][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:43.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:43.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.011][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:43.012][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:43.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.015][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.016][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:43.017][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:43.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.020][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.021][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:43.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:43.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.026][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:43.027][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:43.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.030][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:43.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:43.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.036][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:43.037][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:43.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.040][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.041][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:43.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:43.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.046][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:43.047][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:43.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.050][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.051][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:43.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:43.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.056][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:43.057][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:43.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.059][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.061][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:43.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:43.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:43.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:43.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:43.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:43.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:43.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:43.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:43.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:43.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:43.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:43.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:43.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:43.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:43.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:43.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:43.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:43.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:43.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:43.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:43.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:43.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:43.114][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-01-30 23:54:43.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:43.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:43.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:43.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:43.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:43.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:43.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:43.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:43.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:43.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:43.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:43.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:43.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:43.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:43.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:43.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:43.154][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-01-30 23:54:43.155][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:43.157][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-01-30 23:54:43.159][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:43.160][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:43.161][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:43.163][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:43.164][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:43.165][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:43.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:43.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:43.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:43.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:43.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:43.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:43.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:43.186][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2025-01-30 23:54:43.189][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:43.190][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:43.192][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2025-01-30 23:54:45.756][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2025-01-30 23:54:46.076][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:46.079][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2025-01-30 23:54:46.084][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2025-01-30 23:54:46.088][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2025-01-30 23:54:46.090][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:46.093][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:46.096][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:46.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:46.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:46.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:46.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:46.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:46.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:46.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:46.126][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:46.127][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:46.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.129][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:46.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:46.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.136][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:46.137][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:46.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.139][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.141][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:46.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:46.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.146][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:46.147][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:46.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.149][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.151][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:46.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:46.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.156][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:46.157][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:46.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.159][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.161][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:46.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:46.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.165][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:46.167][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:46.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.169][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:46.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:46.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.175][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:46.177][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:46.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.179][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.180][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:46.182][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:46.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.184][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.185][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:46.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:46.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.190][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:46.191][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:46.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.194][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:46.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:46.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.200][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:46.201][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:46.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.204][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.205][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:46.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:46.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.210][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:46.211][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:46.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.214][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.215][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:46.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:46.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.220][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:46.221][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:46.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.224][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.225][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:46.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:46.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:46.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:46.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:46.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:46.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:46.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:46.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:46.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:46.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:46.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:46.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:46.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:46.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:46.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:46.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:46.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:46.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:46.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:46.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:46.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:46.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:46.287][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-01-30 23:54:46.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:46.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:46.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:46.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:46.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:46.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:46.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:46.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:46.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:46.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:46.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:46.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:46.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:46.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:46.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:46.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:46.316][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-01-30 23:54:46.317][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:46.319][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-01-30 23:54:46.321][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:46.322][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:46.323][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:46.325][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:46.327][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:46.329][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:46.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:46.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:46.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:46.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:46.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:46.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:46.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:46.357][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2025-01-30 23:54:46.361][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:46.362][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:46.363][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2025-01-30 23:54:46.705][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2025-01-30 23:54:47.025][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:47.029][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2025-01-30 23:54:47.034][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2025-01-30 23:54:47.038][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2025-01-30 23:54:47.041][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:47.042][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:47.044][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:47.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:47.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:47.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:47.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:47.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:47.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:47.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:47.068][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:47.069][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:47.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.071][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:47.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:47.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.078][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:47.079][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:47.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.081][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.083][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:47.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:47.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.088][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:47.089][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:47.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.092][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.093][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:47.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:47.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.098][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:47.099][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:47.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.102][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:47.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:47.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.108][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:47.109][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:47.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.112][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:47.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:47.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.118][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:47.119][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:47.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.122][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.123][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:47.124][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:47.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.127][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.128][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:47.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:47.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.133][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:47.135][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:47.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.137][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:47.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:47.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.143][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:47.145][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:47.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.147][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:47.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:47.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.153][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:47.155][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:47.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.157][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.159][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:47.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:47.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.163][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:47.165][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:47.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.167][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.169][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:47.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:47.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:47.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:47.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:47.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:47.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:47.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:47.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:47.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:47.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:47.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:47.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:47.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:47.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:47.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:47.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:47.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:47.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:47.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:47.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:47.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:47.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:47.222][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-01-30 23:54:47.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:47.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:47.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:47.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:47.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:47.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:47.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:47.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:47.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:47.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:47.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:47.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:47.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:47.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:47.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:47.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:47.266][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-01-30 23:54:47.268][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:47.270][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-01-30 23:54:47.271][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:47.273][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:47.274][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:47.276][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:47.277][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:47.278][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:47.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:47.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:47.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:47.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:47.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:47.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:47.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:47.379][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2025-01-30 23:54:47.382][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:47.383][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:47.385][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2025-01-30 23:54:47.723][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2025-01-30 23:54:48.036][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:48.039][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2025-01-30 23:54:48.044][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2025-01-30 23:54:48.048][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2025-01-30 23:54:48.050][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:48.052][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:48.054][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:48.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:48.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:48.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:48.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:48.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:48.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:48.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:48.077][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:48.078][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:48.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.080][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:48.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:48.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.087][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:48.088][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:48.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.091][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.093][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:48.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:48.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.098][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:48.100][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:48.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.102][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.104][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:48.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:48.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.109][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:48.111][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:48.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.113][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:48.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:48.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:48.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:48.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.124][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:48.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:48.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.131][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:48.132][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:48.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.135][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.136][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:48.138][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:48.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.335][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.337][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:48.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:48.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.342][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:48.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:48.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.346][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:48.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:48.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.352][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:48.353][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:48.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.355][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.357][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:48.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:48.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.362][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:48.363][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:48.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.365][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.367][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:48.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:48.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.372][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:48.373][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:48.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.375][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.377][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:48.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:48.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:48.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:48.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:48.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:48.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:48.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:48.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:48.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:48.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:48.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:48.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:48.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:48.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:48.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:48.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:48.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:48.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:48.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:48.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:48.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:48.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:48.432][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-01-30 23:54:48.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:48.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:48.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:48.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:48.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:48.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:48.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:48.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:48.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:48.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:48.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:48.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:48.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:48.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:48.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:48.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:48.461][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-01-30 23:54:48.462][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:48.464][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-01-30 23:54:48.466][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:48.467][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:48.469][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:48.470][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:48.471][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:48.472][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:48.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:48.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:48.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:48.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:48.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:48.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:48.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:48.490][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2025-01-30 23:54:48.493][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:48.494][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:48.496][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2025-01-30 23:54:48.839][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2025-01-30 23:54:49.165][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:49.168][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2025-01-30 23:54:49.172][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2025-01-30 23:54:49.177][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2025-01-30 23:54:49.180][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:49.181][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:49.183][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:49.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:49.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:49.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:49.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:49.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:49.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:49.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:49.208][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:49.209][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:49.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.211][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:49.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:49.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.218][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:49.219][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:49.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.221][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.223][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:49.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:49.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.228][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:49.229][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:49.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.231][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:49.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:49.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.238][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:49.239][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:49.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.241][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:49.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:49.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.248][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:49.249][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:49.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.252][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:49.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:49.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.258][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:49.259][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:49.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.261][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.263][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:49.264][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:49.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.266][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.268][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:49.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:49.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.273][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:49.274][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:49.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.276][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:49.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:49.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.283][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:49.284][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:49.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.286][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:49.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:49.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.293][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:49.294][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:49.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.296][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.298][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:49.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:49.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.303][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:49.304][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:49.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.306][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.308][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:49.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:49.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:49.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:49.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:49.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:49.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:49.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:49.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:49.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:49.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:49.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:49.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:49.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:49.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:49.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:49.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:49.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:49.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:49.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:49.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:49.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:49.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:49.362][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-01-30 23:54:49.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:49.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:49.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:49.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:49.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:49.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:49.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:49.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:49.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:49.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:49.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:49.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:49.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:49.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:49.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:49.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:49.404][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-01-30 23:54:49.406][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:49.408][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-01-30 23:54:49.411][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:49.412][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:49.414][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:49.415][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:49.416][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:49.417][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:49.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:49.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:49.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:49.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:49.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:49.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:49.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:49.434][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2025-01-30 23:54:49.438][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:49.439][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:49.441][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2025-01-30 23:54:49.771][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2025-01-30 23:54:50.086][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:50.089][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2025-01-30 23:54:50.094][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2025-01-30 23:54:50.098][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2025-01-30 23:54:50.101][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:50.103][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:50.104][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:50.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:50.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:50.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:50.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:50.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:50.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:50.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:50.141][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:50.143][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:50.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.145][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:50.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:50.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.152][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:50.153][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:50.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.155][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.157][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:50.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:50.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.162][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:50.164][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:50.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.166][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.167][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:50.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:50.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.172][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:50.174][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:50.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.176][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.178][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:50.179][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:50.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.181][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.183][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:50.184][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:50.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.186][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.188][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:50.189][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:50.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.191][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.194][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:50.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:50.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.200][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:50.201][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:50.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.204][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:50.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:50.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.210][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:50.212][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:50.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.214][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.216][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:50.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:50.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.221][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:50.222][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:50.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.225][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.226][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:50.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:50.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.231][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:50.232][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:50.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.235][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:50.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:50.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:50.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:50.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:50.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:50.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:50.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:50.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:50.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:50.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:50.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:50.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:50.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:50.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:50.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:50.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:50.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:50.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:50.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:50.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:50.289][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-01-30 23:54:50.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:50.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:50.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:50.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:50.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:50.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:50.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:50.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:50.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:50.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:50.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:50.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:50.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:50.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:50.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:50.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:50.324][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-01-30 23:54:50.325][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:50.327][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-01-30 23:54:50.329][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:50.331][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:50.332][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:50.333][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:50.335][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:50.336][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:50.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:50.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:50.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:50.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:50.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:50.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:50.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:50.353][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2025-01-30 23:54:50.356][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:50.358][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:50.359][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2025-01-30 23:54:50.694][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2025-01-30 23:54:50.999][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:51.003][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2025-01-30 23:54:51.008][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2025-01-30 23:54:51.012][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2025-01-30 23:54:51.015][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:51.017][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:51.018][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:51.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:51.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:51.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:51.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:51.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:51.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:51.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:51.037][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:51.038][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:51.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.041][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:51.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:51.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.049][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:51.051][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:51.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.053][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.055][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:51.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:51.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.063][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:51.065][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:51.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.068][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.069][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:51.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:51.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.076][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:51.078][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:51.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.080][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.083][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:51.085][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:51.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.087][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.089][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:51.091][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:51.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.094][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.096][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:51.097][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:51.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.100][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.101][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:51.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:51.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.108][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:51.109][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:51.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.112][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:51.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:51.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.119][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:51.121][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:51.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.124][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:51.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:51.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.132][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:51.134][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:51.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.137][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.139][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:51.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:51.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.146][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:51.148][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:51.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.150][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:51.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:51.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:51.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:51.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:51.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:51.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:51.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:51.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:51.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:51.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:51.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:51.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:51.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:51.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:51.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:51.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:51.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:51.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:51.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:51.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:51.213][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-01-30 23:54:51.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:51.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:51.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:51.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:51.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:51.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:51.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:51.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:51.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:51.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:51.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:51.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:51.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:51.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:51.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:51.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:51.262][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-01-30 23:54:51.263][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:51.265][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-01-30 23:54:51.267][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:51.268][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:51.270][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:51.271][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:51.273][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:51.274][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:51.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:51.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:51.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:51.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:51.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:51.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:51.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:51.299][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2025-01-30 23:54:51.303][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:51.304][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:51.306][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2025-01-30 23:54:51.659][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2025-01-30 23:54:51.971][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:51.974][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2025-01-30 23:54:51.981][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2025-01-30 23:54:51.987][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2025-01-30 23:54:51.990][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:51.992][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:51.994][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:51.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:51.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:51.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:52.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:52.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:52.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:52.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:52.016][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:52.017][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:52.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.019][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:52.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:52.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.026][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:52.027][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:52.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.029][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.031][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:52.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:52.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.036][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:52.037][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:52.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.039][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.041][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:52.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:52.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.046][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:52.047][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:52.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.049][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:52.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:52.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.056][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:52.057][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:52.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.059][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:52.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:52.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.066][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:52.067][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:52.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.069][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.071][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:52.072][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:52.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.074][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.076][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:52.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:52.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.081][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:52.082][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:52.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.084][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:52.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:52.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.090][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:52.092][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:52.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.094][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.096][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:52.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:52.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.101][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:52.102][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:52.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.104][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.106][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:52.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:52.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.111][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:52.112][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:52.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.114][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.116][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:52.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:52.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:52.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:52.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:52.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:52.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:52.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:52.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:52.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:52.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:52.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:52.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:52.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:52.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:52.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:52.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:52.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:52.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:52.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:52.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:52.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:52.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:52.170][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-01-30 23:54:52.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:52.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:52.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:52.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:52.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:52.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:52.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:52.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:52.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:52.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:52.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:52.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:52.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:52.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:52.199][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-01-30 23:54:52.201][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:52.202][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-01-30 23:54:52.204][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:52.206][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:52.207][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:52.208][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:52.210][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:52.211][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:52.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:52.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:52.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:52.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:52.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:52.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:52.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:52.231][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2025-01-30 23:54:52.235][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:52.236][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:52.238][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2025-01-30 23:54:52.592][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2025-01-30 23:54:52.906][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:52.910][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2025-01-30 23:54:52.914][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2025-01-30 23:54:52.919][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2025-01-30 23:54:52.921][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:52.923][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:52.925][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:52.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:52.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:52.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:52.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:52.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:52.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:52.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:52.942][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:52.943][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:52.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.945][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:52.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:52.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.952][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:52.953][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:52.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.955][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.957][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:52.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:52.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.963][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:52.964][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:52.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.966][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.968][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:52.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:52.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.973][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:52.974][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:52.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.977][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:52.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:52.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.983][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:52.984][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:52.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.987][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:52.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:52.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.993][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:52.995][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:52.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:52.997][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:52.998][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:53.000][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:53.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.002][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.003][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:53.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:53.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.008][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:53.010][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:53.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.012][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:53.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:53.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.018][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:53.020][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:53.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.023][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:53.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:53.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.033][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:53.035][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:53.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.039][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.041][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:53.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:53.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.049][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:53.051][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:53.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.055][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.057][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:53.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:53.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:53.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:53.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:53.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:53.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:53.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:53.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:53.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:53.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:53.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:53.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:53.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:53.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:53.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:53.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:53.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:53.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:53.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:53.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:53.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:53.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:53.139][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-01-30 23:54:53.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:53.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:53.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:53.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:53.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:53.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:53.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:53.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:53.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:53.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:53.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:53.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:53.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:53.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:53.175][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-01-30 23:54:53.176][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:53.178][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-01-30 23:54:53.180][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:53.182][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:53.183][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:53.185][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:53.186][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:53.187][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:53.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:53.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:53.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:53.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:53.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:53.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:53.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:53.216][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2025-01-30 23:54:53.219][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:53.220][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:53.222][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2025-01-30 23:54:53.563][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2025-01-30 23:54:53.896][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:53.898][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2025-01-30 23:54:53.903][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2025-01-30 23:54:53.907][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2025-01-30 23:54:53.909][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:53.911][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:53.912][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:53.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:53.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:53.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:53.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:53.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:53.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:53.926][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.TRACE[2025-01-30 23:54:53.929][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:53.931][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:53.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.933][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:53.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:53.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.939][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:53.941][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:53.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.943][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.944][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:53.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:53.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.949][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:53.951][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:53.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.953][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.954][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:53.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:53.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.960][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:53.961][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:53.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.963][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.965][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:53.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:53.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.970][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:53.971][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:53.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.973][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.975][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:53.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:53.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.979][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:53.981][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:53.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.983][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.984][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:53.986][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:53.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.988][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.990][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:53.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:53.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:53.995][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:53.996][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:53.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:53.998][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:54.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:54.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.005][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:54.006][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:54.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.008][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.010][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:54.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:54.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.015][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:54.016][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:54.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.018][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.020][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:54.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:54.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.025][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:54.026][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:54.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.028][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.030][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:54.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:54.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:54.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:54.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:54.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:54.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:54.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:54.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:54.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:54.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:54.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:54.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:54.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:54.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:54.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:54.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:54.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:54.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:54.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:54.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:54.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:54.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:54.083][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-01-30 23:54:54.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:54.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:54.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:54.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:54.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:54.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:54.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:54.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:54.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:54.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:54.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:54.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:54.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:54.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:54.117][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-01-30 23:54:54.118][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:54.120][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-01-30 23:54:54.121][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:54.123][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:54.124][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:54.126][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:54.127][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:54.128][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:54.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:54.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:54.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:54.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:54.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:54.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:54.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:54.147][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2025-01-30 23:54:54.150][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:54.151][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:54.153][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2025-01-30 23:54:54.500][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2025-01-30 23:54:54.812][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:54.815][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2025-01-30 23:54:54.821][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2025-01-30 23:54:54.825][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2025-01-30 23:54:54.827][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:54.829][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:54.830][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:54.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:54.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:54.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:54.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:54.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:54.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:54.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:54.873][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:54.875][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:54.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.878][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:54.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:54.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.888][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:54.890][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:54.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.894][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.896][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:54.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:54.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.904][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:54.906][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:54.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.910][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.912][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:54.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:54.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.920][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:54.922][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:54.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.925][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.928][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:54.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:54.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.935][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:54.937][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:54.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.941][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:54.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:54.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.952][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:54.954][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:54.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.957][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.960][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:54.962][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:54.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.966][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.968][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:54.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:54.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.986][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:54.988][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:54.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.990][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:54.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:54.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:54.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:54.996][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:54.998][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:54.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.000][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.002][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:55.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:55.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.006][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:55.008][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:55.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.010][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.011][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:55.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:55.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.016][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:55.018][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:55.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.020][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.021][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:55.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:55.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:55.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:55.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:55.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:55.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:55.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:55.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:55.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:55.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:55.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:55.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:55.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:55.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:55.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:55.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:55.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:55.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:55.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:55.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:55.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:55.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:55.078][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-01-30 23:54:55.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:55.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:55.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:55.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:55.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:55.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:55.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:55.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:55.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:55.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:55.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:55.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:55.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:55.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:55.125][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-01-30 23:54:55.127][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:55.130][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-01-30 23:54:55.132][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:55.134][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:55.136][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:55.138][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:55.140][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:55.142][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:55.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:55.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:55.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:55.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:55.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:55.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:55.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:55.164][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2025-01-30 23:54:55.167][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:55.168][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:55.170][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2025-01-30 23:54:55.503][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2025-01-30 23:54:55.833][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:55.836][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2025-01-30 23:54:55.841][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2025-01-30 23:54:55.845][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2025-01-30 23:54:55.847][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:55.848][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:55.850][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:55.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:55.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:55.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:55.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:55.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:55.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:55.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:55.883][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:55.884][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:55.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.886][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:55.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:55.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.893][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:55.894][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:55.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.896][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.898][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:55.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:55.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.903][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:55.904][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:55.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.906][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.908][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:55.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:55.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.912][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:55.914][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:55.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.916][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:55.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:55.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.922][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:55.923][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:55.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.926][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.927][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:55.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:55.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.932][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:55.933][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:55.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.935][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.937][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:55.938][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:55.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.940][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.942][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:55.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:55.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.947][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:55.948][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:55.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.950][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:55.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:55.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.957][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:55.958][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:55.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.960][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.962][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:55.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:55.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.966][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:55.968][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:55.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.970][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.971][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:55.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:55.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.976][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:55.978][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:55.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.980][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.981][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:55.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:55.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:55.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:55.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:55.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:55.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:55.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:55.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:55.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:56.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:56.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:56.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:56.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:56.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:56.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:56.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:56.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:56.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:56.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:56.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:56.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:56.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:56.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:56.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:56.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:56.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:56.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:56.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:56.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:56.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:56.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:56.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:56.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:56.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:56.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:56.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:56.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:56.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:56.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:56.036][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-01-30 23:54:56.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:56.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:56.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:56.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:56.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:56.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:56.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:56.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:56.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:56.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:56.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:56.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:56.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:56.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:56.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:56.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:56.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:56.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:56.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:56.066][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-01-30 23:54:56.067][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:56.069][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-01-30 23:54:56.070][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:56.072][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:56.073][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:56.074][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:56.076][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:56.077][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:56.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:56.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:56.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:56.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:56.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:56.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:56.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:56.100][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2025-01-30 23:54:56.104][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:56.105][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:56.107][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2025-01-30 23:54:56.443][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2025-01-30 23:54:57.140][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:57.143][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2025-01-30 23:54:57.147][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2025-01-30 23:54:57.151][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2025-01-30 23:54:57.154][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:57.155][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:57.157][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:57.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:57.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:57.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:57.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:57.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:57.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:57.184][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[2025-01-30 23:54:57.187][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:57.188][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:57.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.190][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:57.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:57.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.196][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:57.197][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:57.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.200][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.201][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:57.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:57.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.206][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:57.207][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:57.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.209][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.211][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:57.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:57.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.216][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:57.217][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:57.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.219][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.221][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:57.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:57.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.225][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:57.227][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:57.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.229][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:57.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:57.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.235][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:57.236][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:57.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.238][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.240][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:57.241][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:57.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.243][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.245][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:57.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:57.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.249][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:57.251][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:57.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.253][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:57.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:57.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.259][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:57.260][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:57.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.262][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.264][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:57.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:57.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.269][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:57.270][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:57.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.272][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.274][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:57.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:57.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.278][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:57.280][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:57.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.282][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.283][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:57.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:57.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:57.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:57.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:57.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:57.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:57.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:57.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:57.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:57.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:57.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:57.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:57.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:57.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:57.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:57.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:57.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:57.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:57.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:57.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:57.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:57.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:57.335][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-01-30 23:54:57.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:57.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:57.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:57.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:57.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:57.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:57.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:57.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:57.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:57.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:57.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:57.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:57.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:57.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:57.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:57.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:57.369][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-01-30 23:54:57.371][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:54:57.373][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-01-30 23:54:57.374][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:54:57.375][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:54:57.377][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:54:57.378][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:54:57.379][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:54:57.380][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:54:57.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:57.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:57.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:57.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:57.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:57.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:57.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:54:57.404][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2025-01-30 23:54:57.407][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:57.408][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:57.410][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2025-01-30 23:54:57.736][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2025-01-30 23:54:58.043][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:58.046][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2025-01-30 23:54:58.051][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2025-01-30 23:54:58.054][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2025-01-30 23:54:58.057][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:54:58.059][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:54:58.060][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:54:58.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.077][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:58.078][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:58.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.080][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:58.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:58.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.087][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:58.088][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:58.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.090][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.092][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:54:58.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:54:58.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.097][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:58.098][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:58.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.100][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.102][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:54:58.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:54:58.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.107][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:58.108][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:58.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.110][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.112][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:54:58.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:54:58.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.117][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:58.118][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:58.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.120][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:54:58.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:54:58.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.127][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:58.128][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:54:58.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.130][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.132][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:58.133][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.135][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.137][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:54:58.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.142][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:58.143][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:58.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.145][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:58.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:58.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.152][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:58.153][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:58.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.155][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.157][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:54:58.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:54:58.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.162][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:58.163][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:58.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.165][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.167][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:54:58.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:54:58.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.172][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:58.173][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:58.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.175][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.177][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:54:58.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:54:58.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:58.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:58.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:58.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:58.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:58.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:58.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:54:58.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:54:58.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:58.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:58.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:58.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:58.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:58.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:58.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:58.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:58.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:58.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:58.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:54:58.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:54:58.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.230][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-01-30 23:54:58.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.360][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:54:58.363][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:54:58.365][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-30 23:54:58.367][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:54:58.369][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-30 23:54:58.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.544][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.902][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:58.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:58.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:58.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:58.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:58.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:58.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:58.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:58.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:58.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:58.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:58.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:59.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:59.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:59.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:59.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:59.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:59.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:59.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:59.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:59.042][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:59.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:59.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:59.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:59.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:59.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:59.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:59.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:59.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:59.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:59.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:59.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:59.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:59.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:59.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:59.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:59.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:59.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:59.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:59.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:59.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:59.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:59.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:59.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:59.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:59.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:59.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:59.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:59.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:59.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:59.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:59.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:59.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:54:59.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:54:59.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:54:59.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:54:59.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:54:59.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:54:59.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:54:59.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:54:59.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:59.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:59.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:59.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:59.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:59.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:59.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:59.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:59.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:54:59.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:59.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:54:59.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:54:59.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:54:59.320][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.INFO [2025-01-30 23:54:59.325][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2025-01-30 23:54:59.328][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:59.330][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:59.332][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:54:59.651][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:54:59.955][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:54:59.958][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2025-01-30 23:54:59.963][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2025-01-30 23:54:59.968][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:54:59.971][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:54:59.973][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:54:59.975][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:55:00.290][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:55:00.599][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:00.602][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2025-01-30 23:55:00.607][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2025-01-30 23:55:00.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:00.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:00.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:00.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:00.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:00.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:00.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:00.636][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-01-30 23:55:00.638][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:55:00.640][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-01-30 23:55:00.643][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:55:00.645][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:55:00.647][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:55:00.649][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:55:00.651][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:55:00.653][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:55:00.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:00.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:00.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:00.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:00.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:00.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:00.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:00.675][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2025-01-30 23:55:00.678][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:00.679][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:00.681][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2025-01-30 23:55:01.229][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2025-01-30 23:55:01.553][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:01.556][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2025-01-30 23:55:01.560][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2025-01-30 23:55:01.564][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2025-01-30 23:55:01.566][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:55:01.568][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:55:01.569][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:55:01.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:01.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:01.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:01.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:01.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:01.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:01.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:01.587][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:01.588][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:01.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.591][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:01.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:01.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.597][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:01.598][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:01.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.601][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.602][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:01.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:01.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.607][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:01.609][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:01.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.611][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.613][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:01.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:01.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.618][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:55:01.619][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:55:01.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.621][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:55:01.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:55:01.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.628][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:55:01.629][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:55:01.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.632][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.633][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:55:01.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:55:01.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.650][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:01.651][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:01.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.654][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.655][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:01.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:01.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.660][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:01.661][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:01.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.664][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.665][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:01.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:01.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.670][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.672][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.674][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.680][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:01.682][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:01.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.684][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:01.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:01.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.690][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:01.692][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:01.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.694][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.695][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:01.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:01.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.700][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:01.702][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:01.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.704][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.705][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:01.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:01.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:01.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:01.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:01.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:01.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:01.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:01.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:01.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:01.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:01.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:01.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:01.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:01.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:01.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:01.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:01.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:01.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:01.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:01.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:01.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:01.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:01.759][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-01-30 23:55:01.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:01.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:01.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:01.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:01.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:01.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:01.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:01.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:01.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:01.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:01.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:01.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:01.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:01.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:01.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:01.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:01.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:01.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:01.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:01.822][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-01-30 23:55:01.824][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:55:01.825][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-01-30 23:55:01.827][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:55:01.829][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:55:01.830][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:55:01.831][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:55:01.832][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:55:01.833][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:55:01.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:01.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:01.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:01.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:01.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:01.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:01.858][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[2025-01-30 23:55:01.859][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2025-01-30 23:55:01.862][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:01.863][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:01.865][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2025-01-30 23:55:02.204][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2025-01-30 23:55:02.524][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:02.527][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2025-01-30 23:55:02.532][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2025-01-30 23:55:02.535][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2025-01-30 23:55:02.538][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:55:02.539][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:55:02.541][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:55:02.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:02.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:02.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:02.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:02.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:02.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:02.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:02.580][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:02.581][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:02.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.583][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:02.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:02.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.590][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:02.591][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:02.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.593][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.595][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:02.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:02.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.600][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:02.601][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:02.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.603][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.605][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:02.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:02.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.610][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:55:02.611][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:55:02.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.613][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:55:02.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:55:02.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.620][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:55:02.621][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:55:02.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.623][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:55:02.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:55:02.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.629][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:02.631][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:02.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.633][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.634][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:02.636][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:02.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.638][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.639][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:02.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:02.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.644][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:02.646][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:02.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.648][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:02.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:02.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.654][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:02.656][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:02.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.658][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:02.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:02.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.664][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:02.666][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:02.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.668][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.669][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:02.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:02.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.674][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:02.676][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:02.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.678][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.679][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:02.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:02.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:02.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:02.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:02.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:02.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:02.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:02.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:02.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:02.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:02.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:02.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:02.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:02.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:02.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:02.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:02.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:02.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:02.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:02.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:02.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:02.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:02.733][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-01-30 23:55:02.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:02.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:02.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:02.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:02.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:02.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:02.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:02.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:02.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:02.791][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.INFO [2025-01-30 23:55:02.802][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2025-01-30 23:55:02.804][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:02.806][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:02.808][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:55:03.334][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:55:03.824][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:03.827][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-01-30 23:55:03.832][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-01-30 23:55:03.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:03.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:03.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:03.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:03.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:03.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:03.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:03.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:03.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:03.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:03.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:03.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:03.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:03.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:03.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:03.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:03.887][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.TRACE[2025-01-30 23:55:03.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:03.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:03.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:03.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:03.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:03.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:03.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:03.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:03.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:03.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:03.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:03.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:03.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:03.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:03.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:03.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:03.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:03.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:03.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:03.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:03.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:03.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.055][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[2025-01-30 23:55:04.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.188][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[2025-01-30 23:55:04.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.228][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.TRACE[2025-01-30 23:55:04.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.276][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.TRACE[2025-01-30 23:55:04.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.415][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[2025-01-30 23:55:04.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.538][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[2025-01-30 23:55:04.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.711][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[2025-01-30 23:55:04.714][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:04.716][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-30 23:55:04.718][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:04.720][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-30 23:55:04.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.813][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.900][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.TRACE[2025-01-30 23:55:04.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:04.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:04.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:04.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:04.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:04.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:04.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:04.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:04.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:04.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:04.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:04.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:05.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.038][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[2025-01-30 23:55:05.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:05.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:05.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:05.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:05.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:05.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.261][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[2025-01-30 23:55:05.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:05.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:05.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:05.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:05.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:05.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:05.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.562][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-30 23:55:05.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-30 23:55:05.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-30 23:55:05.588][biodb::testThat]
biodb.INFO [2025-01-30 23:55:05.590][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-01-30 23:55:05.591][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:05.592][biodb::testThat]
biodb.TRACE[2025-01-30 23:55:05.596][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-30 23:55:05.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-30 23:55:05.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:05.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:05.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:05.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:05.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:05.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:05.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:05.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:05.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:05.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:05.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:05.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:05.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:05.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:05.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:05.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:05.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:05.644][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[2025-01-30 23:55:05.649][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[2025-01-30 23:55:05.655][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:05.657][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:05.660][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:55:05.982][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:55:06.294][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:06.297][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2025-01-30 23:55:06.302][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2025-01-30 23:55:06.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:06.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:06.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:06.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:06.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:06.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:06.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:06.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:06.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:06.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:06.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:06.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:06.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:06.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:06.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:06.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:06.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:06.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:06.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:06.344][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:55:06.348][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:06.350][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:06.352][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:55:06.672][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:55:06.997][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:07.000][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2025-01-30 23:55:07.005][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2025-01-30 23:55:07.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:07.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:07.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:07.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:07.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:07.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:07.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:07.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:07.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:07.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:07.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:07.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:07.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:07.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:07.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:07.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:07.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:07.083][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-30 23:55:07.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:07.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:07.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:07.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:07.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:07.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:07.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:07.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.142][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.144][private$selectFields]
biodb.TRACE[2025-01-30 23:55:07.145][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:07.146][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:07.148][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.149][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.150][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.152][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.154][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.155][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.157][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.158][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.160][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.161][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.162][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.164][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.165][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:07.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.189][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-30 23:55:07.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:07.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:07.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:07.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:07.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:07.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:07.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:07.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.228][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.229][private$selectFields]
biodb.TRACE[2025-01-30 23:55:07.230][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:07.231][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:07.233][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.237][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.239][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.240][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.242][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.243][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.244][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.246][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.247][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.249][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.250][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:07.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.266][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-30 23:55:07.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:07.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:07.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:07.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:07.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:07.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:07.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:07.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.296][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.297][private$selectFields]
biodb.TRACE[2025-01-30 23:55:07.298][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:07.299][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:07.300][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.301][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.303][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.305][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.306][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.307][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.310][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.312][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:07.313][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.314][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.317][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.318][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:07.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:07.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.334][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-30 23:55:07.335][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-30 23:55:07.336][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-30 23:55:07.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:07.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:07.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:07.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:07.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:07.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:07.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:07.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:07.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:07.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:07.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:07.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:07.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:07.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:07.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:07.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:07.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:07.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:07.458][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[2025-01-30 23:55:07.462][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:07.463][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:07.466][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:55:07.985][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:55:08.300][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:08.303][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2025-01-30 23:55:08.308][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2025-01-30 23:55:08.313][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:55:08.316][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:08.317][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:08.320][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:55:08.636][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:55:08.945][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:08.949][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2025-01-30 23:55:08.956][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2025-01-30 23:55:08.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:08.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:08.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:08.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:08.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:08.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:08.978][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.TRACE[2025-01-30 23:55:08.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:08.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:08.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:08.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:08.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:08.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:08.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:08.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:08.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:08.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:08.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:08.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:09.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:09.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:09.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:09.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:09.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:09.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:09.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:09.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:09.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:09.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:09.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:09.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:09.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:09.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:09.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:09.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:09.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:09.102][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-30 23:55:09.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:09.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:09.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:09.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:09.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:09.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:09.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:09.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.155][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:09.156][private$selectFields]
biodb.TRACE[2025-01-30 23:55:09.157][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:09.158][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:09.159][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:09.161][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.162][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.164][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.165][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.167][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.169][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.170][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:09.171][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:09.172][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.174][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.176][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.177][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:09.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.193][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-30 23:55:09.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:09.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:09.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:09.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:09.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:09.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:09.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:09.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.284][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:09.286][private$selectFields]
biodb.TRACE[2025-01-30 23:55:09.288][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:09.290][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:09.291][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:09.293][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.295][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.299][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.301][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.303][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.306][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.308][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:09.324][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:09.326][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.329][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.332][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.334][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:09.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:09.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:09.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:09.368][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-30 23:55:09.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:09.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:09.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:10.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:10.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:10.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:10.290][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.TRACE[2025-01-30 23:55:10.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.305][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.307][private$selectFields]
biodb.TRACE[2025-01-30 23:55:10.309][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:10.311][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:10.313][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.315][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.318][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.322][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.324][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.326][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.330][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.332][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.335][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.336][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.338][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.340][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.343][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:10.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.371][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-30 23:55:10.373][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-30 23:55:10.374][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-30 23:55:10.391][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-30 23:55:10.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-30 23:55:10.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-30 23:55:10.409][biodb::testThat]
biodb.INFO [2025-01-30 23:55:10.410][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-01-30 23:55:10.411][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:10.413][biodb::testThat]
biodb.TRACE[2025-01-30 23:55:10.417][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-30 23:55:10.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-30 23:55:10.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:10.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:10.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:10.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:10.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:10.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:10.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:10.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:10.475][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[2025-01-30 23:55:10.479][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:10.481][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-30 23:55:10.483][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:10.485][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-30 23:55:10.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:10.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:10.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:10.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:10.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:10.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:10.506][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[2025-01-30 23:55:10.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:10.534][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[2025-01-30 23:55:10.538][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:10.540][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-30 23:55:10.541][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:10.544][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-30 23:55:10.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:10.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:10.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:10.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:10.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:10.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:10.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:10.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:10.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:10.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:10.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:10.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:10.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:10.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:10.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:10.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:10.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:10.622][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-30 23:55:10.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:10.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:10.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:10.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:10.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:10.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:10.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:10.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.663][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.665][private$selectFields]
biodb.TRACE[2025-01-30 23:55:10.667][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:10.668][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:10.670][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.672][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.673][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.675][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.676][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.678][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.680][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.681][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.682][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.684][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.687][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.689][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:10.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.706][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-30 23:55:10.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:10.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:10.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:10.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:10.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:10.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:10.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:10.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.757][private$selectFields]
biodb.TRACE[2025-01-30 23:55:10.758][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:10.760][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:10.761][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.763][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.764][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.767][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.771][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.773][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.774][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.776][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.777][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.778][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.781][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.783][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:10.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.806][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-30 23:55:10.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:10.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:10.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:10.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:10.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:10.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:10.832][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[2025-01-30 23:55:10.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.850][private$selectFields]
biodb.TRACE[2025-01-30 23:55:10.852][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:10.854][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:10.855][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.857][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.859][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.862][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.864][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.866][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.869][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.873][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:10.875][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.877][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.880][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.882][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:10.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:10.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:10.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:10.904][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-30 23:55:10.906][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-30 23:55:10.907][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-30 23:55:11.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:11.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:11.071][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[2025-01-30 23:55:11.077][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:11.079][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-01-30 23:55:11.081][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:11.083][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-01-30 23:55:11.086][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[2025-01-30 23:55:11.090][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:11.092][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-01-30 23:55:11.093][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:11.096][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-01-30 23:55:11.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:11.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:11.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:11.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:11.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:11.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:11.222][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-30 23:55:11.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:11.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.249][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.250][private$selectFields]
biodb.TRACE[2025-01-30 23:55:11.252][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:11.253][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:11.254][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.257][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.261][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.262][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.263][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.266][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.267][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.269][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.272][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.274][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.275][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:11.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.292][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-30 23:55:11.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:11.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.320][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.321][private$selectFields]
biodb.TRACE[2025-01-30 23:55:11.322][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:11.323][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:11.325][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.326][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.331][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.337][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.341][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.343][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.345][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.346][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.347][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.350][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.351][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:11.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.369][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-30 23:55:11.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:11.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.400][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.401][private$selectFields]
biodb.TRACE[2025-01-30 23:55:11.402][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:11.403][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:11.405][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.406][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.407][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.410][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.411][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.412][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.414][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.416][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.417][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.418][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.420][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.422][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.423][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:11.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.442][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-30 23:55:11.443][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-30 23:55:11.444][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-30 23:55:11.455][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-30 23:55:11.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-30 23:55:11.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-30 23:55:11.471][biodb::testThat]
biodb.INFO [2025-01-30 23:55:11.473][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-01-30 23:55:11.474][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:11.475][biodb::testThat]
biodb.TRACE[2025-01-30 23:55:11.479][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-30 23:55:11.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-30 23:55:11.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.494][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:11.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:11.525][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[2025-01-30 23:55:11.529][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:11.531][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-30 23:55:11.532][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:11.541][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-30 23:55:11.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:11.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:11.589][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[2025-01-30 23:55:11.593][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:11.595][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-30 23:55:11.597][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:11.599][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-30 23:55:11.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.620][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.TRACE[2025-01-30 23:55:11.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:11.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:11.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:11.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:11.668][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-30 23:55:11.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:11.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.715][private$selectFields]
biodb.TRACE[2025-01-30 23:55:11.717][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:11.718][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:11.719][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.724][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.727][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.729][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.730][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.731][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.733][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.736][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.737][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:11.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.754][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-30 23:55:11.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:11.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.786][private$selectFields]
biodb.TRACE[2025-01-30 23:55:11.787][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:11.788][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:11.790][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.791][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.792][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.794][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.796][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.797][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.799][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.800][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.802][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.803][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.806][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.808][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:11.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.824][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-30 23:55:11.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:11.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.850][private$selectFields]
biodb.TRACE[2025-01-30 23:55:11.852][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:11.853][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:11.854][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.855][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.856][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.859][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.861][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.863][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.864][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.866][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:11.867][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.868][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.870][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.872][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:11.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:11.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.888][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-30 23:55:11.889][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-30 23:55:11.890][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-30 23:55:11.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:11.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:11.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:11.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:11.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:11.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:11.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:11.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:11.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:11.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:11.985][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[2025-01-30 23:55:11.988][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[2025-01-30 23:55:11.992][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:11.993][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-01-30 23:55:11.995][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:11.997][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-01-30 23:55:12.001][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[2025-01-30 23:55:12.004][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:12.006][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-01-30 23:55:12.008][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:12.010][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-01-30 23:55:12.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:12.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:12.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:12.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:12.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:12.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:12.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:12.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:12.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:12.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:12.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:12.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:12.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:12.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:12.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:12.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:12.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:12.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:12.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:12.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:12.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:12.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:12.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:12.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:12.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:12.161][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-30 23:55:12.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:12.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:12.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:12.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:12.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:12.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:12.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:12.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.187][private$selectFields]
biodb.TRACE[2025-01-30 23:55:12.189][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:12.190][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:12.191][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.196][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.197][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.198][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.200][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.202][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.203][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.205][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.207][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.209][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:12.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.224][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-30 23:55:12.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:12.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:12.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:12.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:12.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:12.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:12.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:12.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.257][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.258][private$selectFields]
biodb.TRACE[2025-01-30 23:55:12.259][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:12.260][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:12.261][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.262][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.264][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.266][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.267][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.271][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.272][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.274][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.275][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.276][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.278][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.280][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:12.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.296][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-30 23:55:12.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:12.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:12.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:12.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:12.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:12.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:12.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:12.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.374][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.376][private$selectFields]
biodb.TRACE[2025-01-30 23:55:12.378][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-30 23:55:12.380][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-30 23:55:12.382][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.384][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.386][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.390][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.392][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.394][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.398][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.400][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.402][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-30 23:55:12.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.406][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.409][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.411][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-30 23:55:12.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:12.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:12.435][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-30 23:55:12.437][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-30 23:55:12.439][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-30 23:55:12.493][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-30 23:55:12.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-30 23:55:12.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:12.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-30 23:55:12.518][biodb::testThat]
biodb.INFO [2025-01-30 23:55:12.520][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-01-30 23:55:12.521][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:12.522][biodb::testThat]
biodb.DEBUG[2025-01-30 23:55:12.524][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-30 23:55:12.526][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:55:12.528][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-30 23:55:12.529][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:55:12.531][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:55:12.532][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:55:12.533][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:55:12.535][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:55:12.536][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:55:12.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:12.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:12.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:12.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:12.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:12.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:12.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:12.558][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2025-01-30 23:55:12.561][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:12.563][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:12.564][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2025-01-30 23:55:13.447][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2025-01-30 23:55:13.791][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:13.795][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2025-01-30 23:55:13.800][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2025-01-30 23:55:13.804][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2025-01-30 23:55:13.806][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:55:13.808][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:55:13.810][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:55:13.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:13.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:13.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:13.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:13.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:13.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:13.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:13.828][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:13.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:13.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.831][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:13.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:13.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.838][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:13.839][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:13.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.841][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.843][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:13.844][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:13.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.846][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.848][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:55:13.849][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:55:13.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.851][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.853][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:55:13.854][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:55:13.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.856][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.858][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:13.859][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:13.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.862][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.864][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:13.865][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:13.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.867][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.869][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:13.870][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:13.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.873][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.874][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:13.875][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:13.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.878][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.879][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:13.881][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:13.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.885][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.887][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:13.889][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:13.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.893][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:13.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:13.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:13.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:13.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:13.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:13.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:13.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:13.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:13.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:13.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:13.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:13.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:13.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:13.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:13.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:13.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:13.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:13.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:13.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:13.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:13.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:13.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:13.958][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-01-30 23:55:13.959][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-30 23:55:13.980][biodb::testThat]
biodb.INFO [2025-01-30 23:55:13.982][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-01-30 23:55:13.983][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:13.984][biodb::testThat]
biodb.DEBUG[2025-01-30 23:55:14.011][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-01-30 23:55:14.013][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-01-30 23:55:14.014][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-01-30 23:55:14.016][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-01-30 23:55:14.018][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2025-01-30 23:55:14.019][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:55:14.021][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:55:14.022][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:55:14.023][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:55:14.024][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:55:14.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:14.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:14.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:14.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:14.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:14.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:14.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:14.047][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2025-01-30 23:55:14.051][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:14.053][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:14.055][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2025-01-30 23:55:14.360][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2025-01-30 23:55:14.680][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:14.684][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2025-01-30 23:55:14.691][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2025-01-30 23:55:14.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:14.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:14.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:14.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:14.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:14.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:14.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:14.714][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2025-01-30 23:55:14.717][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:14.718][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:14.720][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2025-01-30 23:55:15.055][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2025-01-30 23:55:15.370][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:15.373][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2025-01-30 23:55:15.377][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2025-01-30 23:55:15.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:15.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:15.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:15.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:15.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:15.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:15.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:15.404][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2025-01-30 23:55:15.408][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:15.410][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:15.411][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2025-01-30 23:55:15.762][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2025-01-30 23:55:16.081][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:16.084][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2025-01-30 23:55:16.088][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2025-01-30 23:55:16.092][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2025-01-30 23:55:16.095][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:55:16.097][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-01-30 23:55:16.099][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-01-30 23:55:16.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:16.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:16.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:16.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:16.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:16.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:16.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:16.148][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.149][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.151][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.158][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:16.159][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:16.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.161][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.163][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:16.164][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:16.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.166][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.168][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:55:16.169][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:55:16.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.171][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.173][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:55:16.174][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:55:16.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.177][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.178][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:16.179][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:16.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.181][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.183][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:16.184][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:16.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.186][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.188][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:16.189][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:16.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.192][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.193][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:16.194][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:16.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.196][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.198][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:16.199][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:16.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.202][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.203][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:16.204][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:16.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.207][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:16.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:16.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:16.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:16.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:16.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:16.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:16.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:16.263][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.264][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.266][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.273][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:16.274][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:16.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.276][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.278][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:16.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:16.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.283][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:16.284][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:16.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.287][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:16.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:16.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.294][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:55:16.295][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:55:16.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.297][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:55:16.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:55:16.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.304][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:55:16.305][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:55:16.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.307][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:55:16.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:55:16.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.314][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:16.315][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:16.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.317][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.319][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:16.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:16.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.324][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:16.325][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:16.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.327][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.329][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:16.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:16.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.334][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:16.335][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:16.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.337][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:16.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:16.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.343][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:16.345][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:16.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.347][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:16.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:16.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.354][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:16.355][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:16.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.357][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.359][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:16.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:16.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.364][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:16.365][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:16.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.367][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.369][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:16.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:16.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:16.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:16.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:16.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:16.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:16.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:16.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:16.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:16.444][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.446][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.448][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.454][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:16.456][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:16.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.458][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.459][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:16.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:16.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.464][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:16.465][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:16.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.468][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.469][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:16.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:16.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.474][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:55:16.475][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:55:16.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.478][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:55:16.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:55:16.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.484][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:55:16.485][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:55:16.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.487][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.489][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:55:16.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:55:16.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.494][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:16.495][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:16.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.497][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.499][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:16.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:16.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.504][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:16.505][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:16.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.507][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.509][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:16.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:16.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.514][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:16.515][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:16.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.517][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:16.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:16.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.524][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:16.525][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:16.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.527][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:16.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:16.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.534][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:16.535][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:16.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.537][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.539][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:16.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:16.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.543][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:16.545][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:16.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.547][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.548][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:16.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:16.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:16.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:16.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:16.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:16.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:16.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:16.630][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-01-30 23:55:16.631][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-30 23:55:16.632][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-01-30 23:55:16.660][biodb::testThat]
biodb.INFO [2025-01-30 23:55:16.662][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-01-30 23:55:16.663][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:16.664][biodb::testThat]
biodb.INFO [2025-01-30 23:55:16.710][biodb::testThat]
biodb.INFO [2025-01-30 23:55:16.711][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-01-30 23:55:16.713][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:16.714][biodb::testThat]
biodb.INFO [2025-01-30 23:55:16.730][biodb::testThat]
biodb.INFO [2025-01-30 23:55:16.732][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-01-30 23:55:16.733][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:16.734][biodb::testThat]
biodb.DEBUG[2025-01-30 23:55:16.737][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[2025-01-30 23:55:16.741][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:16.742][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:16.744][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:55:17.269][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:55:17.735][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:17.738][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2025-01-30 23:55:17.744][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2025-01-30 23:55:17.774][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:17.776][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:17.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:17.779][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:17.780][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:17.782][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:17.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:17.784][ef$get] fields variable is a list.
biodb.INFO [2025-01-30 23:55:17.786][biodb::testThat]
biodb.INFO [2025-01-30 23:55:17.788][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-01-30 23:55:17.789][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:17.790][biodb::testThat]
biodb.ERROR[2025-01-30 23:55:17.807][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-01-30 23:55:17.824][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-01-30 23:55:17.839][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-30 23:55:17.840][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-30 23:55:17.842][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-30 23:55:17.843][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-30 23:55:17.844][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:17.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:17.846][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:17.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:17.848][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:17.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-30 23:55:17.969][biodb::testContext]
biodb.INFO [2025-01-30 23:55:17.971][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-30 23:55:17.973][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-01-30 23:55:17.974][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-30 23:55:17.975][biodb::testContext]
biodb.INFO [2025-01-30 23:55:17.978][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-30 23:55:17.981][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-30 23:55:17.986][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:55:17.987][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-30 23:55:17.989][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-30 23:55:17.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:17.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:17.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:17.993][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-30 23:55:17.994][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-30 23:55:17.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.008][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-30 23:55:18.009][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-30 23:55:18.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.012][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.DEBUG[2025-01-30 23:55:18.013][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-30 23:55:18.015][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-30 23:55:18.016][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-30 23:55:18.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.021][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-30 23:55:18.022][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-30 23:55:18.023][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-30 23:55:18.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.028][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-30 23:55:18.029][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-30 23:55:18.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.033][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-30 23:55:18.035][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-30 23:55:18.036][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-30 23:55:18.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.042][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-30 23:55:18.044][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-30 23:55:18.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.051][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-30 23:55:18.053][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-30 23:55:18.055][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-30 23:55:18.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.062][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-30 23:55:18.063][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-30 23:55:18.064][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-30 23:55:18.065][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-30 23:55:18.067][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-30 23:55:18.068][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-30 23:55:18.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.072][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-30 23:55:18.074][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-30 23:55:18.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.078][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-30 23:55:18.079][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-30 23:55:18.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.084][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-30 23:55:18.085][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-30 23:55:18.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.092][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-30 23:55:18.093][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-30 23:55:18.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.098][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-30 23:55:18.099][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-30 23:55:18.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.104][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-30 23:55:18.105][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-30 23:55:18.109][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-30 23:55:18.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.113][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-30 23:55:18.114][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-30 23:55:18.116][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-30 23:55:18.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.120][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-30 23:55:18.122][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.124][self$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[2025-01-30 23:55:18.125][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.126][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:18.127][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.129][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.130][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.131][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.132][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-30 23:55:18.133][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:18.135][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.136][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-30 23:55:18.137][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:18.138][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.140][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.141][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:55:18.141][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:55:18.141][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:55:18.141][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-30 23:55:18.141][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-30 23:55:18.142][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:18.143][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:18.144][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:18.146][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:18.147][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:18.148][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:18.149][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.151][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.153][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:18.154][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:18.155][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.156][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.158][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-30 23:55:18.160][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.161][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-30 23:55:18.162][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.164][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:18.165][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.166][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.167][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.169][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.170][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-30 23:55:18.171][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:18.172][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.173][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-30 23:55:18.175][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:18.176][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.177][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.178][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:55:18.178][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:55:18.178][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:55:18.178][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-30 23:55:18.178][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-30 23:55:18.179][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:18.181][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:18.182][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:18.183][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:18.184][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:18.185][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:18.186][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.187][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.189][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:18.190][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:18.191][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.193][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.195][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-30 23:55:18.198][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.200][self$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[2025-01-30 23:55:18.202][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.204][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:18.206][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.208][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.210][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.212][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.214][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-30 23:55:18.215][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:18.216][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.217][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-30 23:55:18.219][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:18.220][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.221][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.222][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.223][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:18.225][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:18.226][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:18.227][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:18.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:18.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:18.231][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.232][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.233][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:18.234][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:18.235][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.236][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.238][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-30 23:55:18.241][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.243][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-30 23:55:18.245][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.247][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:18.248][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.250][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.252][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.254][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.256][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-30 23:55:18.258][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:18.260][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.262][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-30 23:55:18.264][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:18.266][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.268][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.270][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.272][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:18.274][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:18.275][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:18.276][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:18.277][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:18.278][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:18.279][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.281][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.282][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:18.283][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:18.284][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.286][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:18.287][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:55:18.288][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.289][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[2025-01-30 23:55:18.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.312][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.DEBUG[2025-01-30 23:55:18.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.351][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[2025-01-30 23:55:18.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.385][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-30 23:55:18.387][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-30 23:55:18.389][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-30 23:55:18.390][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-30 23:55:18.392][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-30 23:55:18.394][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-30 23:55:18.395][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-30 23:55:18.397][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-30 23:55:18.399][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-30 23:55:18.401][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-30 23:55:18.403][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-30 23:55:18.404][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-30 23:55:18.406][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-30 23:55:18.407][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-30 23:55:18.409][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-30 23:55:18.411][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-30 23:55:18.412][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-30 23:55:18.414][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-30 23:55:18.415][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-30 23:55:18.417][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-30 23:55:18.419][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-30 23:55:18.420][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-30 23:55:18.422][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-30 23:55:18.424][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-30 23:55:18.425][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-30 23:55:18.427][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-30 23:55:18.429][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-30 23:55:18.430][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-30 23:55:18.432][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-30 23:55:18.434][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-30 23:55:18.436][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-30 23:55:18.437][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-30 23:55:18.439][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-30 23:55:18.440][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-30 23:55:18.442][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-30 23:55:18.444][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-30 23:55:18.475][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-30 23:55:18.478][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-30 23:55:18.482][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-30 23:55:18.484][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-30 23:55:18.487][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-30 23:55:18.490][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-30 23:55:18.493][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-30 23:55:18.495][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-30 23:55:18.498][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-30 23:55:18.501][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-30 23:55:18.503][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-30 23:55:18.506][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-30 23:55:18.509][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-30 23:55:18.511][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-30 23:55:18.514][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-30 23:55:18.516][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-30 23:55:18.519][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-30 23:55:18.522][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-30 23:55:18.524][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-30 23:55:18.527][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-30 23:55:18.529][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-30 23:55:18.532][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-30 23:55:18.534][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-30 23:55:18.537][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-30 23:55:18.539][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-30 23:55:18.542][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-30 23:55:18.545][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-30 23:55:18.547][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-30 23:55:18.550][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-30 23:55:18.552][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-30 23:55:18.555][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-30 23:55:18.557][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-30 23:55:18.560][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-30 23:55:18.562][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-30 23:55:18.565][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-30 23:55:18.567][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-30 23:55:18.570][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-30 23:55:18.572][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-30 23:55:18.575][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-30 23:55:18.577][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-30 23:55:18.580][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-30 23:55:18.582][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-30 23:55:18.585][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-30 23:55:18.587][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-30 23:55:18.590][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-30 23:55:18.592][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-30 23:55:18.595][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-30 23:55:18.597][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-30 23:55:18.601][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-30 23:55:18.603][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:55:18.605][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.608][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.634][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[2025-01-30 23:55:18.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.745][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[2025-01-30 23:55:18.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:18.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:18.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:18.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:18.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:18.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:18.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:18.764][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-30 23:55:18.766][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-30 23:55:18.768][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.769][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.770][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.772][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:18.773][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.775][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.777][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.778][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-30 23:55:18.780][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-30 23:55:18.782][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:18.783][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.784][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-30 23:55:18.785][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:18.787][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-30 23:55:18.787][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-30 23:55:18.787][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-30 23:55:18.787][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-30 23:55:18.787][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-30 23:55:18.787][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-30 23:55:18.787][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-30 23:55:18.787][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-30 23:55:18.787][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-30 23:55:18.787][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-30 23:55:18.787][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-30 23:55:18.788][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:18.789][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:55:18.789][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:55:18.789][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:55:18.790][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-30 23:55:18.792][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:18.793][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:18.794][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:18.795][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:18.796][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:18.797][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:18.798][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:55:18.798][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-30 23:55:18.800][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:18.801][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:18.802][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:18.803][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-30 23:55:18.803][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-30 23:55:18.805][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-30 23:55:18.806][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-30 23:55:18.808][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-30 23:55:18.810][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-30 23:55:18.811][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-30 23:55:18.813][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-30 23:55:18.817][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-30 23:55:18.818][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-30 23:55:18.819][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-30 23:55:18.821][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-30 23:55:18.823][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-30 23:55:18.824][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-30 23:55:18.826][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-30 23:55:18.827][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-30 23:55:18.829][biodb::testThat]
biodb.INFO [2025-01-30 23:55:18.830][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-01-30 23:55:18.831][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:18.832][biodb::testThat]
biodb.DEBUG[2025-01-30 23:55:18.837][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-30 23:55:18.842][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:18.843][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:18.844][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2025-01-30 23:55:19.139][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2025-01-30 23:55:19.549][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:19.553][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2025-01-30 23:55:19.560][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2025-01-30 23:55:19.568][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[2025-01-30 23:55:19.574][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:19.576][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:19.580][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:55:19.889][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:55:20.193][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:20.197][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2025-01-30 23:55:20.202][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2025-01-30 23:55:20.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:20.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:20.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:20.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:20.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:20.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:20.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:20.239][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:55:20.242][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:20.244][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:20.246][private$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[2025-01-30 23:55:20.554][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[2025-01-30 23:55:20.881][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:20.884][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2025-01-30 23:55:20.891][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2025-01-30 23:55:20.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:20.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:20.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:20.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:20.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:20.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:20.918][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[2025-01-30 23:55:20.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:20.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:20.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:20.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:20.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:20.952][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:20.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:20.975][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[2025-01-30 23:55:20.979][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:20.981][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-01-30 23:55:20.983][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:20.985][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-01-30 23:55:20.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:20.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:20.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:20.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:21.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:21.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:21.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:21.006][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[2025-01-30 23:55:21.011][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:21.012][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-01-30 23:55:21.014][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:21.092][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-01-30 23:55:21.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:21.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:21.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:21.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:21.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:21.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:21.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:21.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:21.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:21.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:21.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:21.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:21.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:21.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:21.132][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[2025-01-30 23:55:21.135][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:21.137][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-01-30 23:55:21.138][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:21.140][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-01-30 23:55:21.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:21.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:21.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:21.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:21.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:21.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:21.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:21.162][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[2025-01-30 23:55:21.165][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:21.167][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-01-30 23:55:21.168][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:21.170][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-01-30 23:55:21.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:21.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:21.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:21.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:21.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:21.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:21.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:21.192][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[2025-01-30 23:55:21.195][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:21.197][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:21.199][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:55:21.508][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:55:21.816][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:21.818][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2025-01-30 23:55:21.823][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2025-01-30 23:55:21.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:21.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:21.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:21.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:21.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:21.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:21.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-30 23:55:21.858][biodb::testThat]
biodb.INFO [2025-01-30 23:55:21.860][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-01-30 23:55:21.861][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:21.862][biodb::testThat]
biodb.DEBUG[2025-01-30 23:55:21.866][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:55:21.870][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:21.871][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:21.873][private$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[2025-01-30 23:55:22.277][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[2025-01-30 23:55:22.597][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:22.600][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2025-01-30 23:55:22.605][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2025-01-30 23:55:22.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:22.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:22.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:22.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:22.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:22.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:22.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:22.630][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[2025-01-30 23:55:22.634][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:22.635][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:22.637][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-30 23:55:22.951][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-30 23:55:23.256][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:23.259][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2025-01-30 23:55:23.264][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2025-01-30 23:55:23.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:23.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-30 23:55:23.366][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-30 23:55:23.368][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-30 23:55:23.369][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-30 23:55:23.370][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-30 23:55:23.371][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.373][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.375][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-30 23:55:23.382][biodb::testContext]
biodb.INFO [2025-01-30 23:55:23.383][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-30 23:55:23.384][biodb::testContext] Test context - Test web services
biodb.INFO [2025-01-30 23:55:23.385][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-30 23:55:23.386][biodb::testContext]
biodb.INFO [2025-01-30 23:55:23.389][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-30 23:55:23.392][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-30 23:55:23.397][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:55:23.398][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-30 23:55:23.400][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-30 23:55:23.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.403][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[2025-01-30 23:55:23.404][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-30 23:55:23.405][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-30 23:55:23.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.410][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-30 23:55:23.411][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-30 23:55:23.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.415][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-30 23:55:23.417][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-30 23:55:23.418][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-30 23:55:23.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.422][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-30 23:55:23.424][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-30 23:55:23.425][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-30 23:55:23.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.429][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-30 23:55:23.431][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-30 23:55:23.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.435][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-30 23:55:23.436][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-30 23:55:23.437][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-30 23:55:23.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.442][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-30 23:55:23.443][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-30 23:55:23.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.448][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-30 23:55:23.449][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-30 23:55:23.450][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-30 23:55:23.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.455][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-30 23:55:23.456][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-30 23:55:23.457][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-30 23:55:23.458][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-30 23:55:23.460][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-30 23:55:23.461][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-30 23:55:23.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.465][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-30 23:55:23.467][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-30 23:55:23.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.471][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-30 23:55:23.472][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-30 23:55:23.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.477][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-30 23:55:23.479][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-30 23:55:23.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.483][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-30 23:55:23.485][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-30 23:55:23.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.489][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-30 23:55:23.490][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-30 23:55:23.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.494][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[2025-01-30 23:55:23.495][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-30 23:55:23.496][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-30 23:55:23.500][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-30 23:55:23.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.505][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-30 23:55:23.506][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-30 23:55:23.507][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-30 23:55:23.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.512][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-30 23:55:23.514][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.515][self$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[2025-01-30 23:55:23.517][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.518][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:23.519][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.520][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.522][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.523][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.524][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-30 23:55:23.525][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:23.527][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.528][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-30 23:55:23.529][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:23.530][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.532][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.533][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:55:23.533][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:55:23.533][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:55:23.533][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-30 23:55:23.533][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-30 23:55:23.534][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:23.535][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:23.536][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:23.538][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:23.539][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:23.540][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:23.541][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.543][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.544][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:23.545][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:23.546][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.547][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.549][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-30 23:55:23.551][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.552][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-30 23:55:23.553][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.554][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:23.556][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.557][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.558][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.571][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.573][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-30 23:55:23.574][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:23.576][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.577][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-30 23:55:23.578][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:23.579][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.580][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.581][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:55:23.581][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:55:23.581][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:55:23.581][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-30 23:55:23.581][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-30 23:55:23.583][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:23.584][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:23.585][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:23.586][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:23.588][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:23.589][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:23.590][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.591][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.592][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:23.594][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:23.595][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.596][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.598][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-30 23:55:23.599][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.601][self$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[2025-01-30 23:55:23.602][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.603][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:23.604][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.605][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.607][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.608][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.609][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-30 23:55:23.610][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:23.611][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.613][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-30 23:55:23.614][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:23.615][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.616][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.617][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.618][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:23.620][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:23.621][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:23.622][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:23.623][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:23.624][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:23.625][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.626][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.627][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:23.628][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:23.630][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.631][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.632][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-30 23:55:23.634][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.635][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-30 23:55:23.636][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.638][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:23.639][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.640][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.641][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.642][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.644][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-30 23:55:23.645][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:23.646][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.648][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-30 23:55:23.650][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:23.651][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.652][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:23.653][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.655][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:23.656][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:23.657][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:23.658][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:23.660][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:23.661][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:23.662][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:23.664][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.665][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:23.666][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:23.667][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:23.668][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:23.670][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:55:23.671][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.688][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[2025-01-30 23:55:23.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.708][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[2025-01-30 23:55:23.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.714][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.DEBUG[2025-01-30 23:55:23.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.770][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[2025-01-30 23:55:23.771][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-30 23:55:23.773][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-30 23:55:23.774][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-30 23:55:23.776][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-30 23:55:23.778][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-30 23:55:23.779][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-30 23:55:23.781][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-30 23:55:23.782][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-30 23:55:23.784][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-30 23:55:23.785][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-30 23:55:23.787][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-30 23:55:23.789][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-30 23:55:23.790][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-30 23:55:23.792][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-30 23:55:23.793][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-30 23:55:23.795][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-30 23:55:23.796][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-30 23:55:23.798][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-30 23:55:23.799][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-30 23:55:23.801][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-30 23:55:23.803][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-30 23:55:23.804][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-30 23:55:23.806][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-30 23:55:23.808][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-30 23:55:23.809][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-30 23:55:23.811][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-30 23:55:23.813][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-30 23:55:23.814][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-30 23:55:23.816][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-30 23:55:23.818][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-30 23:55:23.819][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-30 23:55:23.821][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-30 23:55:23.822][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-30 23:55:23.824][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-30 23:55:23.826][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-30 23:55:23.827][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-30 23:55:23.829][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-30 23:55:23.830][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-30 23:55:23.832][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-30 23:55:23.833][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-30 23:55:23.835][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-30 23:55:23.837][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-30 23:55:23.838][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-30 23:55:23.840][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-30 23:55:23.842][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-30 23:55:23.843][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-30 23:55:23.845][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-30 23:55:23.846][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-30 23:55:23.848][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-30 23:55:23.850][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-30 23:55:23.851][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-30 23:55:23.853][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-30 23:55:23.854][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-30 23:55:23.856][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-30 23:55:23.858][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-30 23:55:23.859][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-30 23:55:23.861][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-30 23:55:23.862][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-30 23:55:23.864][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-30 23:55:23.865][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-30 23:55:23.867][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-30 23:55:23.869][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-30 23:55:23.870][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-30 23:55:23.872][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-30 23:55:23.874][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-30 23:55:23.875][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-30 23:55:23.877][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-30 23:55:23.878][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-30 23:55:23.880][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-30 23:55:23.881][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-30 23:55:23.883][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-30 23:55:23.885][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-30 23:55:23.886][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-30 23:55:23.888][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-30 23:55:23.889][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-30 23:55:23.891][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-30 23:55:23.893][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-30 23:55:23.894][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-30 23:55:23.896][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-30 23:55:23.897][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-30 23:55:23.899][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-30 23:55:23.900][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-30 23:55:23.902][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-30 23:55:23.904][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-30 23:55:23.906][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-30 23:55:23.907][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:55:23.908][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.911][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.912][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[2025-01-30 23:55:23.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.935][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[2025-01-30 23:55:23.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.960][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.DEBUG[2025-01-30 23:55:23.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:23.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:23.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:23.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:23.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:23.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:23.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:23.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:24.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.002][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[2025-01-30 23:55:24.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:24.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:24.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:24.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:24.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:24.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:24.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:24.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:24.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.017][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[2025-01-30 23:55:24.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:24.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:24.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:24.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:24.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:24.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:24.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:24.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:24.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:24.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:24.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:24.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:24.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:24.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:24.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:24.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:24.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:24.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:24.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:24.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:24.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.060][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-30 23:55:24.062][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-30 23:55:24.064][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:24.065][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-30 23:55:24.066][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:24.067][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:24.069][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:24.070][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:24.071][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:24.072][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-30 23:55:24.073][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-30 23:55:24.075][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:24.076][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:24.077][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-30 23:55:24.078][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:24.080][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-30 23:55:24.080][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-30 23:55:24.080][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-30 23:55:24.080][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-30 23:55:24.080][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-30 23:55:24.080][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-30 23:55:24.080][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-30 23:55:24.080][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-30 23:55:24.080][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-30 23:55:24.080][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-30 23:55:24.080][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-30 23:55:24.081][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:24.082][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:55:24.082][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:55:24.082][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:55:24.084][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-30 23:55:24.085][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:24.086][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:24.087][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:24.088][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:24.089][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:24.091][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:24.092][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:55:24.092][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-30 23:55:24.093][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:24.094][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:24.095][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:24.096][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-30 23:55:24.096][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-30 23:55:24.098][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-30 23:55:24.100][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-30 23:55:24.102][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-30 23:55:24.103][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-30 23:55:24.105][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-30 23:55:24.108][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-30 23:55:24.111][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-30 23:55:24.112][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-30 23:55:24.114][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-30 23:55:24.116][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-30 23:55:24.117][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-30 23:55:24.118][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-30 23:55:24.120][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-30 23:55:24.122][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-30 23:55:24.124][biodb::testThat]
biodb.INFO [2025-01-30 23:55:24.125][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-01-30 23:55:24.126][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:24.127][biodb::testThat]
biodb.DEBUG[2025-01-30 23:55:24.131][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-30 23:55:24.136][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:24.138][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-30 23:55:24.141][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:24.145][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-30 23:55:24.149][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-30 23:55:24.153][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:24.154][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:24.156][private$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[2025-01-30 23:55:24.466][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[2025-01-30 23:55:24.769][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:24.774][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2025-01-30 23:55:24.781][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2025-01-30 23:55:24.801][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-30 23:55:24.803][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-30 23:55:24.805][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-30 23:55:24.806][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-30 23:55:24.807][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:24.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:24.810][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:24.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:24.813][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-30 23:55:24.820][biodb::testContext]
biodb.INFO [2025-01-30 23:55:24.822][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-30 23:55:24.823][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-01-30 23:55:24.825][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-30 23:55:24.826][biodb::testContext]
biodb.INFO [2025-01-30 23:55:24.829][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-30 23:55:24.832][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-30 23:55:24.841][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:55:24.843][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-30 23:55:24.844][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-30 23:55:24.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.849][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-30 23:55:24.850][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-30 23:55:24.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.855][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-30 23:55:24.856][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-30 23:55:24.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.862][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-30 23:55:24.863][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-30 23:55:24.864][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-30 23:55:24.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.869][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-30 23:55:24.871][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-30 23:55:24.872][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-30 23:55:24.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.877][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-30 23:55:24.879][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-30 23:55:24.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.884][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-30 23:55:24.885][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-30 23:55:24.886][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-30 23:55:24.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.893][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-30 23:55:24.894][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-30 23:55:24.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.900][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-30 23:55:24.901][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-30 23:55:24.903][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-30 23:55:24.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.909][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-30 23:55:24.910][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-30 23:55:24.911][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-30 23:55:24.913][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-30 23:55:24.915][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-30 23:55:24.917][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-30 23:55:24.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.921][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-30 23:55:24.923][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-30 23:55:24.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.928][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-30 23:55:24.929][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-30 23:55:24.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.933][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[2025-01-30 23:55:24.934][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-30 23:55:24.935][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-30 23:55:24.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.940][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-30 23:55:24.941][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-30 23:55:24.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.945][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[2025-01-30 23:55:24.946][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-30 23:55:24.948][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-30 23:55:24.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.956][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-30 23:55:24.958][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-30 23:55:24.962][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-30 23:55:24.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.968][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-30 23:55:24.970][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-30 23:55:24.972][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-30 23:55:24.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:24.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:24.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:24.980][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-30 23:55:24.983][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:24.985][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-30 23:55:24.987][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:24.989][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:24.991][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:24.993][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:24.995][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:24.997][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:24.999][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-30 23:55:25.001][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:25.003][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.005][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-30 23:55:25.007][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:25.009][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.011][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.013][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:55:25.013][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:55:25.013][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:55:25.013][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-30 23:55:25.013][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-30 23:55:25.015][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:25.017][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:25.019][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:25.021][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:25.023][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:25.025][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:25.027][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.029][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.031][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:25.033][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:25.034][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.035][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.037][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-30 23:55:25.039][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.040][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-30 23:55:25.042][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.043][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:25.044][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.045][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.047][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.048][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.049][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-30 23:55:25.051][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:25.052][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.053][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-30 23:55:25.055][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:25.056][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.057][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.058][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:55:25.058][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:55:25.058][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:55:25.058][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-30 23:55:25.058][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-30 23:55:25.060][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:25.061][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:25.062][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:25.063][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:25.065][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:25.066][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:25.067][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.069][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.070][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:25.071][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:25.073][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.074][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.076][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-30 23:55:25.078][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.079][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-30 23:55:25.081][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.083][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:25.085][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.087][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.089][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.091][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.093][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-30 23:55:25.095][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:25.097][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.099][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-30 23:55:25.110][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:25.112][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.113][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.115][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.116][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:25.117][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:25.119][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:25.120][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:25.121][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:25.123][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:25.124][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.125][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.126][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:25.128][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:25.129][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.130][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.132][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-30 23:55:25.134][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.135][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-30 23:55:25.136][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.137][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:25.139][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.140][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.141][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.142][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.144][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-30 23:55:25.145][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:25.146][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.147][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-30 23:55:25.148][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:25.150][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.151][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.152][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.153][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-30 23:55:25.155][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:25.156][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:25.157][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:25.158][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:25.159][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:25.160][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.162][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.163][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:25.164][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:25.165][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.166][self$setPropertyValue]
biodb.DEBUG[2025-01-30 23:55:25.168][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:55:25.169][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.170][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.DEBUG[2025-01-30 23:55:25.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.182][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[2025-01-30 23:55:25.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.187][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[2025-01-30 23:55:25.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.220][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[2025-01-30 23:55:25.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.267][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-30 23:55:25.269][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-30 23:55:25.271][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-30 23:55:25.272][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-30 23:55:25.274][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-30 23:55:25.276][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-30 23:55:25.277][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-30 23:55:25.279][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-30 23:55:25.281][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-30 23:55:25.282][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-30 23:55:25.284][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-30 23:55:25.286][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-30 23:55:25.287][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-30 23:55:25.289][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-30 23:55:25.291][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-30 23:55:25.292][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-30 23:55:25.294][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-30 23:55:25.295][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-30 23:55:25.297][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-30 23:55:25.299][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-30 23:55:25.300][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-30 23:55:25.302][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-30 23:55:25.304][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-30 23:55:25.307][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-30 23:55:25.310][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-30 23:55:25.312][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-30 23:55:25.315][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-30 23:55:25.318][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-30 23:55:25.320][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-30 23:55:25.323][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-30 23:55:25.324][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-30 23:55:25.326][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-30 23:55:25.327][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-30 23:55:25.329][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-30 23:55:25.331][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-30 23:55:25.332][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-30 23:55:25.334][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-30 23:55:25.335][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-30 23:55:25.337][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-30 23:55:25.339][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-30 23:55:25.340][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-30 23:55:25.342][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-30 23:55:25.344][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-30 23:55:25.345][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-30 23:55:25.347][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-30 23:55:25.349][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-30 23:55:25.350][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-30 23:55:25.352][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-30 23:55:25.353][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-30 23:55:25.355][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-30 23:55:25.357][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-30 23:55:25.358][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-30 23:55:25.360][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-30 23:55:25.361][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-30 23:55:25.363][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-30 23:55:25.365][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-30 23:55:25.366][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-30 23:55:25.368][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-30 23:55:25.369][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-30 23:55:25.371][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-30 23:55:25.373][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-30 23:55:25.374][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-30 23:55:25.376][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-30 23:55:25.378][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-30 23:55:25.379][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-30 23:55:25.381][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-30 23:55:25.382][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-30 23:55:25.384][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-30 23:55:25.386][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-30 23:55:25.387][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-30 23:55:25.389][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-30 23:55:25.391][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-30 23:55:25.392][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-30 23:55:25.394][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-30 23:55:25.395][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-30 23:55:25.397][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-30 23:55:25.399][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-30 23:55:25.400][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-30 23:55:25.402][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-30 23:55:25.403][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-30 23:55:25.405][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-30 23:55:25.407][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-30 23:55:25.408][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-30 23:55:25.410][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-30 23:55:25.412][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-30 23:55:25.414][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-30 23:55:25.415][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.417][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.475][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[2025-01-30 23:55:25.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.484][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[2025-01-30 23:55:25.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.492][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[2025-01-30 23:55:25.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.550][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[2025-01-30 23:55:25.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.558][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[2025-01-30 23:55:25.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-30 23:55:25.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.597][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-30 23:55:25.599][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-30 23:55:25.603][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.604][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.606][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.607][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-30 23:55:25.608][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.610][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.611][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.612][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-30 23:55:25.613][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-30 23:55:25.614][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-30 23:55:25.616][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.617][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-30 23:55:25.618][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-30 23:55:25.619][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-30 23:55:25.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-30 23:55:25.619][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-30 23:55:25.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-30 23:55:25.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-30 23:55:25.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-30 23:55:25.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-30 23:55:25.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-30 23:55:25.619][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-30 23:55:25.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-30 23:55:25.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-30 23:55:25.621][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-30 23:55:25.622][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-30 23:55:25.622][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-30 23:55:25.622][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-30 23:55:25.623][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-30 23:55:25.625][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:25.626][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:25.627][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-30 23:55:25.628][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-30 23:55:25.629][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-30 23:55:25.630][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-30 23:55:25.632][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:55:25.632][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-30 23:55:25.633][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-30 23:55:25.634][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-30 23:55:25.635][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-30 23:55:25.636][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-30 23:55:25.636][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-30 23:55:25.638][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-30 23:55:25.640][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-30 23:55:25.641][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-30 23:55:25.643][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-30 23:55:25.645][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-30 23:55:25.647][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-30 23:55:25.650][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-30 23:55:25.651][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-30 23:55:25.653][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-30 23:55:25.655][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-30 23:55:25.656][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-30 23:55:25.657][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-30 23:55:25.659][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-30 23:55:25.660][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-30 23:55:25.662][biodb::testThat]
biodb.INFO [2025-01-30 23:55:25.664][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-01-30 23:55:25.665][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-30 23:55:25.666][biodb::testThat]
biodb.DEBUG[2025-01-30 23:55:25.670][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-30 23:55:25.675][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:25.677][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-30 23:55:25.679][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:25.681][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-30 23:55:25.685][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[2025-01-30 23:55:25.689][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-30 23:55:25.691][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-01-30 23:55:25.692][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-30 23:55:25.694][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-01-30 23:55:25.699][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-01-30 23:55:25.700][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-30 23:55:25.702][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-01-30 23:55:25.704][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-30 23:55:25.706][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-30 23:55:25.707][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-30 23:55:25.708][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-30 23:55:25.709][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-30 23:55:25.711][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-30 23:55:25.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:25.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:25.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:25.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:25.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:25.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:25.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-30 23:55:25.735][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2025-01-30 23:55:25.738][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-30 23:55:25.739][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-30 23:55:25.741][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2025-01-30 23:55:31.021][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2025-01-30 23:55:31.601][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-30 23:55:31.604][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2025-01-30 23:55:31.610][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2025-01-30 23:55:31.613][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2025-01-30 23:55:31.617][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-30 23:55:31.618][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-30 23:55:31.620][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-30 23:55:31.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-30 23:55:31.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:31.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:31.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:31.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:31.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:31.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-30 23:55:31.709][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:31.710][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:31.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.713][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:31.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:31.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.730][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:31.731][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:31.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.734][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.736][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-30 23:55:31.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-30 23:55:31.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.741][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:31.743][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:31.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.746][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.749][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-30 23:55:31.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-30 23:55:31.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.754][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-30 23:55:31.755][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-30 23:55:31.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.757][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.759][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-30 23:55:31.760][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-30 23:55:31.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.763][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.765][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:31.766][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:31.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.768][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.770][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:31.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-30 23:55:31.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.775][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:31.776][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:31.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.779][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.781][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-30 23:55:31.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-30 23:55:31.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.786][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:31.787][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:31.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.790][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:31.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-30 23:55:31.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.797][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:31.798][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:31.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.800][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.803][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-30 23:55:31.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-30 23:55:31.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.808][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:31.809][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:31.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.811][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.813][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-30 23:55:31.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-30 23:55:31.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.818][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:31.820][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:31.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.822][ef$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.824][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-30 23:55:31.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-30 23:55:31.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:31.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:31.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:31.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:31.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:31.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:31.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-30 23:55:31.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-30 23:55:31.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:31.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:31.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:31.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:31.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:31.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:31.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:31.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:31.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:31.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:31.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-30 23:55:31.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-30 23:55:31.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-30 23:55:31.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-30 23:55:31.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-30 23:55:31.935][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-01-30 23:55:31.946][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-30 23:55:31.949][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-30 23:55:31.951][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-30 23:55:31.953][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-30 23:55:31.954][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-30 23:55:31.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-30 23:55:31.956][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-30 23:55:31.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-30 23:55:31.959][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-30 23:55:31.960][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 386 ]
>
> proc.time()
user system elapsed
23.62 2.46 76.26
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 4.25 | 2.50 | 146.20 | |
| ChebiEntry | 0.65 | 0.01 | 0.67 | |