Pierrick Roger
| Snapshot Date: 2024-03-27 14:00:18 -0400 (Wed, 27 Mar 2024) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: devel |
| git_last_commit: 6eb1625 |
| git_last_commit_date: 2023-10-24 11:36:37 -0400 (Tue, 24 Oct 2023) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-03-28 11:40:22 -0400 (Thu, 28 Mar 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4708 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" | 4446 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4471 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" | 4426 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 199/2270 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.9.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the biodbChebi package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: biodbChebi |
| Version: 1.9.0 |
| Command: /home/biocbuild/R/R-4.4-devel-2024.03.20/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library --no-vignettes --timings biodbChebi_1.9.0.tar.gz |
| StartedAt: 2024-03-28 03:17:30 -0000 (Thu, 28 Mar 2024) |
| EndedAt: 2024-03-28 03:20:58 -0000 (Thu, 28 Mar 2024) |
| EllapsedTime: 207.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R-4.4-devel-2024.03.20/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library --no-vignettes --timings biodbChebi_1.9.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2024-03-19 r86153)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
gcc (GCC) 10.3.1
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.9.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.4-devel-2024.03.20/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library’ * installing *source* package ‘biodbChebi’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbChebi)
biodbChebi.Rcheck/tests/testthat.Rout
R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2024-03-28 03:19:19.137][biodb::testContext]
biodb.INFO [2024-03-28 03:19:19.140][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-28 03:19:19.142][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-03-28 03:19:19.143][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-28 03:19:19.145][biodb::testContext]
biodb.INFO [2024-03-28 03:19:19.153][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.11.0.
biodb.DEBUG[2024-03-28 03:19:19.156][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-03-28 03:19:19.166][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:19:19.167][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-03-28 03:19:19.169][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-03-28 03:19:19.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.175][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-03-28 03:19:19.204][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-03-28 03:19:19.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.209][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-03-28 03:19:19.211][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-03-28 03:19:19.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.217][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-03-28 03:19:19.219][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-03-28 03:19:19.220][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-03-28 03:19:19.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.226][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-03-28 03:19:19.228][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-03-28 03:19:19.230][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-03-28 03:19:19.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.236][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-03-28 03:19:19.238][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-03-28 03:19:19.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.242][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[2024-03-28 03:19:19.243][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-03-28 03:19:19.245][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-03-28 03:19:19.247][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-03-28 03:19:19.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.253][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-03-28 03:19:19.255][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-03-28 03:19:19.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.261][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-03-28 03:19:19.262][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-03-28 03:19:19.264][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-03-28 03:19:19.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.270][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-03-28 03:19:19.272][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-03-28 03:19:19.273][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-03-28 03:19:19.275][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-03-28 03:19:19.277][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-03-28 03:19:19.279][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-03-28 03:19:19.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.285][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-03-28 03:19:19.286][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-03-28 03:19:19.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.292][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-03-28 03:19:19.294][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-03-28 03:19:19.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.300][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-03-28 03:19:19.302][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-03-28 03:19:19.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.308][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-03-28 03:19:19.310][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-03-28 03:19:19.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.315][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-03-28 03:19:19.317][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-03-28 03:19:19.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.323][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-03-28 03:19:19.324][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-03-28 03:19:19.330][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-03-28 03:19:19.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.334][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[2024-03-28 03:19:19.336][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-03-28 03:19:19.338][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-03-28 03:19:19.339][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-03-28 03:19:19.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.348][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-03-28 03:19:19.399][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.435][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-03-28 03:19:19.436][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.438][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:19:19.439][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.441][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.442][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.444][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.445][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-28 03:19:19.447][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:19:19.448][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.450][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-03-28 03:19:19.451][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:19:19.453][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.454][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.455][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:19:19.455][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:19:19.455][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:19:19.455][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-28 03:19:19.455][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-28 03:19:19.457][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:19:19.458][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:19:19.460][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:19:19.461][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:19:19.463][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:19:19.464][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:19:19.465][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.467][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.468][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:19:19.469][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:19:19.471][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.472][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.474][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-03-28 03:19:19.477][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.478][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-03-28 03:19:19.480][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.481][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:19:19.483][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.484][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.486][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.487][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.489][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-28 03:19:19.490][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:19:19.492][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.493][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-03-28 03:19:19.494][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:19:19.496][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.497][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.499][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:19:19.499][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:19:19.499][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:19:19.499][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-28 03:19:19.499][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-28 03:19:19.500][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:19:19.502][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:19:19.503][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:19:19.504][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:19:19.506][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:19:19.507][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:19:19.509][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.510][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.511][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:19:19.513][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:19:19.514][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.515][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.517][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-03-28 03:19:19.520][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.521][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-03-28 03:19:19.523][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.524][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:19:19.526][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.527][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.529][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.530][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.532][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-28 03:19:19.533][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:19:19.535][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.537][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-03-28 03:19:19.538][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:19:19.540][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.541][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.543][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.544][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:19:19.546][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:19:19.547][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:19:19.549][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:19:19.550][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:19:19.552][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:19:19.553][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.555][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.556][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:19:19.557][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:19:19.559][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.561][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.562][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-03-28 03:19:19.565][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.567][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-03-28 03:19:19.568][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.570][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:19:19.571][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.573][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.574][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.576][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.577][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-28 03:19:19.579][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:19:19.580][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.582][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-03-28 03:19:19.583][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:19:19.585][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.586][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:19.587][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.589][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:19:19.590][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:19:19.592][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:19:19.593][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:19:19.594][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:19:19.595][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:19:19.597][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:19:19.598][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.600][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:19:19.601][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:19:19.602][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:19.604][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:19:19.609][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:19:19.610][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.673][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[2024-03-28 03:19:19.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.718][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-03-28 03:19:19.724][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-03-28 03:19:19.726][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-03-28 03:19:19.728][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-03-28 03:19:19.730][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-03-28 03:19:19.733][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-03-28 03:19:19.735][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-03-28 03:19:19.737][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-03-28 03:19:19.739][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-03-28 03:19:19.741][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-03-28 03:19:19.743][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-28 03:19:19.745][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-03-28 03:19:19.747][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-03-28 03:19:19.749][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-03-28 03:19:19.751][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-03-28 03:19:19.753][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-03-28 03:19:19.755][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-03-28 03:19:19.757][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-03-28 03:19:19.759][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-03-28 03:19:19.761][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-03-28 03:19:19.763][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-03-28 03:19:19.765][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-03-28 03:19:19.768][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-03-28 03:19:19.770][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-03-28 03:19:19.772][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-03-28 03:19:19.774][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-03-28 03:19:19.776][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-03-28 03:19:19.778][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-03-28 03:19:19.780][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-03-28 03:19:19.782][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-03-28 03:19:19.784][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-03-28 03:19:19.786][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-03-28 03:19:19.788][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-03-28 03:19:19.790][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-03-28 03:19:19.792][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-03-28 03:19:19.794][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-03-28 03:19:19.796][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-03-28 03:19:19.798][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-03-28 03:19:19.800][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-03-28 03:19:19.802][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-03-28 03:19:19.804][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-03-28 03:19:19.806][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-03-28 03:19:19.808][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-03-28 03:19:19.817][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-03-28 03:19:19.819][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-03-28 03:19:19.821][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-03-28 03:19:19.823][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-03-28 03:19:19.825][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-03-28 03:19:19.827][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-03-28 03:19:19.829][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-03-28 03:19:19.831][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-03-28 03:19:19.833][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-03-28 03:19:19.835][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-03-28 03:19:19.837][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-03-28 03:19:19.839][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-03-28 03:19:19.841][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-03-28 03:19:19.844][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-03-28 03:19:19.845][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-03-28 03:19:19.848][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-03-28 03:19:19.849][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-03-28 03:19:19.852][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-03-28 03:19:19.853][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-03-28 03:19:19.856][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-03-28 03:19:19.858][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-03-28 03:19:19.860][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-03-28 03:19:19.862][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-03-28 03:19:19.864][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-03-28 03:19:19.866][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-03-28 03:19:19.868][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-03-28 03:19:19.870][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-03-28 03:19:19.872][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-03-28 03:19:19.874][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-03-28 03:19:19.876][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-03-28 03:19:19.878][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-03-28 03:19:19.880][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-03-28 03:19:19.882][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-03-28 03:19:19.884][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-03-28 03:19:19.886][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-03-28 03:19:19.888][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-03-28 03:19:19.890][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-03-28 03:19:19.892][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-03-28 03:19:19.894][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-03-28 03:19:19.896][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-03-28 03:19:19.904][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-03-28 03:19:19.906][initialize] This is biodb version 1.11.0.
biodb.DEBUG[2024-03-28 03:19:19.910][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:19:19.911][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.914][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:19.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:19.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:19.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:19.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:19.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:19.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:19.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:19.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:19.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:19.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:19.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:19.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:19.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:19.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:19.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:19.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:19.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:19.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:19.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:19.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:19.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:19.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:19.999][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[2024-03-28 03:19:20.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:20.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:20.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:20.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:20.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:20.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:20.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:20.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:20.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:20.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:20.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:20.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:20.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:20.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:20.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:20.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:20.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:20.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:20.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:20.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:20.025][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[2024-03-28 03:19:20.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:20.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:20.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:20.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:20.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:20.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:20.033][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[2024-03-28 03:19:20.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:20.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:20.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:20.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:20.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:20.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:20.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:20.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:20.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:20.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:20.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:20.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:20.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:20.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:20.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:20.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:20.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:20.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:20.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:20.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:20.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:20.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:19:20.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:20.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:20.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:20.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:20.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:20.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:20.070][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-03-28 03:19:20.084][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-03-28 03:19:20.087][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:20.089][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-03-28 03:19:20.090][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:20.091][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:19:20.093][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:20.094][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:19:20.095][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:20.097][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-03-28 03:19:20.098][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-03-28 03:19:20.100][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:19:20.101][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:20.102][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-03-28 03:19:20.104][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:19:20.105][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-03-28 03:19:20.105][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-03-28 03:19:20.105][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-03-28 03:19:20.105][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-03-28 03:19:20.105][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-03-28 03:19:20.105][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-03-28 03:19:20.105][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-03-28 03:19:20.105][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-03-28 03:19:20.105][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-03-28 03:19:20.105][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-03-28 03:19:20.105][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-03-28 03:19:20.107][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-03-28 03:19:20.108][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:19:20.108][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:19:20.108][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:19:20.110][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-03-28 03:19:20.111][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:19:20.112][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:19:20.113][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:19:20.115][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:19:20.116][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:19:20.117][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:19:20.119][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:19:20.119][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-03-28 03:19:20.120][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:19:20.121][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:19:20.123][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-03-28 03:19:20.124][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-03-28 03:19:20.124][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-03-28 03:19:20.133][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-03-28 03:19:20.135][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-28 03:19:20.137][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-03-28 03:19:20.139][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-03-28 03:19:20.142][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-03-28 03:19:20.144][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-03-28 03:19:20.175][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-03-28 03:19:20.177][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-03-28 03:19:20.192][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-03-28 03:19:20.197][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-03-28 03:19:20.203][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-28 03:19:20.204][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-28 03:19:20.206][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-03-28 03:19:20.208][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-03-28 03:19:20.219][biodb::testThat]
biodb.INFO [2024-03-28 03:19:20.221][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-03-28 03:19:20.222][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:19:20.224][biodb::testThat]
biodb.TRACE[2024-03-28 03:19:20.229][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-03-28 03:19:20.232][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:20.236][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:20.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:20.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:20.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:20.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:20.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:20.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:20.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:20.283][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.285][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.288][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.312][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:20.314][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:20.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.316][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.355][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:20.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:20.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.362][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:20.363][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:20.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.366][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.368][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:20.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:20.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.374][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:20.376][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:20.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.378][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.380][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:20.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:20.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.386][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:20.388][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:20.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.390][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.392][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:20.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:20.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.398][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:20.400][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:20.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.403][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.404][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:20.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:20.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.410][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:20.412][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:20.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.415][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.417][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:20.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:20.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.423][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:20.424][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:20.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.427][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:20.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:20.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.435][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:20.436][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:20.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.439][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.441][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:20.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:20.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.447][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:20.449][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:20.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.452][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.453][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:20.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:20.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.459][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:20.461][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:20.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.464][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.466][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:20.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:20.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:20.589][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-03-28 03:19:20.593][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:20.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:20.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.599][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:20.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:20.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.638][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:20.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:20.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:20.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:20.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:20.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:20.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:20.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:20.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.662][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-28 03:19:20.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-28 03:19:20.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.667][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-28 03:19:20.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-28 03:19:20.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.673][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-03-28 03:19:20.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-03-28 03:19:20.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.679][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-03-28 03:19:20.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-03-28 03:19:20.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.821][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.822][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.825][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:20.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:20.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.862][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.864][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.867][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:20.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.923][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:20.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:20.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:20.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:20.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.935][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:20.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:20.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.941][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:20.942][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:20.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.945][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:20.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:20.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.964][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:20.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:20.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.971][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:20.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:20.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.977][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:20.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:20.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.984][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:20.985][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:20.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.988][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:20.990][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:20.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:20.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:20.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.029][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.030][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.033][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.070][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.071][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.074][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.093][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:21.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:21.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.099][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:21.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:21.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.105][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:21.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:21.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.111][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:21.112][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:21.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.115][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.117][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:21.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:21.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.133][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.138][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.144][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.150][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.151][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.154][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.155][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.171][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.177][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.183][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.188][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.190][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.192][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.194][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.210][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:21.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:21.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.215][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:21.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:21.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.221][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:21.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:21.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.227][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:21.228][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:21.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.231][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.232][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:21.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:21.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.256][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.267][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.272][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.274][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.277][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:21.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:21.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:21.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:21.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:21.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:21.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.311][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:21.312][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:21.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.315][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:21.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:21.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.333][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:21.334][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:21.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.337][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.343][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:21.345][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:21.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.347][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.354][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:21.355][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:21.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.358][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.364][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:21.366][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:21.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.368][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.375][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.376][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.379][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.385][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.387][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.390][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.396][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.397][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.400][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.406][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.408][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.411][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.417][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.419][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.421][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.428][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:21.429][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:21.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.432][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.438][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:21.440][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:21.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.443][ef$get] fields variable is a list.
biodb.INFO [2024-03-28 03:19:21.453][biodb::testThat]
biodb.INFO [2024-03-28 03:19:21.454][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-03-28 03:19:21.456][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:19:21.457][biodb::testThat]
biodb.DEBUG[2024-03-28 03:19:21.477][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-03-28 03:19:21.486][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:21.491][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-03-28 03:19:21.493][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:21.495][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-03-28 03:19:21.496][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:21.530][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:21.532][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:21.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:21.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:21.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:21.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:21.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:21.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:21.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:21.551][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:21.552][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:21.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.555][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:21.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:21.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.596][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:21.598][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:21.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.601][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.603][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:21.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:21.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.609][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:21.610][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:21.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.613][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.615][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:21.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:21.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.621][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:21.622][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:21.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.625][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:21.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:21.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.633][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.635][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.638][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:21.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.646][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.647][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.650][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.652][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:21.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.658][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:21.660][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.662][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.664][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:21.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:21.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.670][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.672][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.675][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:21.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.683][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:21.684][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:21.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.687][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:21.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:21.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.696][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:21.697][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.700][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.702][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:21.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:21.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.708][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:21.709][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:21.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.712][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.714][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:21.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:21.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:21.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:21.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:21.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:21.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:21.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:21.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:21.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:21.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:21.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:21.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:21.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:21.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:21.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:21.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:21.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:21.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:21.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:21.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:21.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:21.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:21.779][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-03-28 03:19:21.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-03-28 03:19:21.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-03-28 03:19:21.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-03-28 03:19:21.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-03-28 03:19:21.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-03-28 03:19:21.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-03-28 03:19:21.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-03-28 03:19:21.808][biodb::testThat]
biodb.INFO [2024-03-28 03:19:21.810][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-03-28 03:19:21.811][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:19:21.813][biodb::testThat]
biodb.TRACE[2024-03-28 03:19:21.817][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:21.819][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:21.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.822][ef$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:21.823][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-03-28 03:19:21.860][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:21.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:21.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:21.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:21.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:21.872][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:21.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:21.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:21.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:21.882][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-03-28 03:19:21.897][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-03-28 03:19:21.928][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:19:21.951][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-03-28 03:19:21.953][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:21.955][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-03-28 03:19:21.989][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[2024-03-28 03:19:21.994][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:19:21.996][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-03-28 03:19:21.998][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:22.001][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-03-28 03:19:22.004][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-03-28 03:19:22.021][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:22.023][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:22.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.026][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.028][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:22.029][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:22.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.032][ef$get] fields variable is a list.
biodb.INFO [2024-03-28 03:19:22.038][biodb::testThat]
biodb.INFO [2024-03-28 03:19:22.040][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-03-28 03:19:22.041][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:19:22.043][biodb::testThat]
biodb.TRACE[2024-03-28 03:19:22.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:22.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:22.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.083][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:22.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:22.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.089][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:22.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:22.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:22.171][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[2024-03-28 03:19:22.184][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:19:22.186][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-03-28 03:19:22.188][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:22.189][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-03-28 03:19:22.211][biodb::testThat]
biodb.INFO [2024-03-28 03:19:22.213][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-03-28 03:19:22.214][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:19:22.215][biodb::testThat]
biodb.TRACE[2024-03-28 03:19:22.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:22.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:22.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.250][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:22.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:22.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:22.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:22.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:22.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:22.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:22.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:22.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:22.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:22.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.279][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-28 03:19:22.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-28 03:19:22.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.284][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-28 03:19:22.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-28 03:19:22.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.290][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-03-28 03:19:22.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-03-28 03:19:22.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.296][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-03-28 03:19:22.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-03-28 03:19:22.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.326][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:22.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:22.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:22.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:22.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:22.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:22.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.343][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:22.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:22.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:22.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:22.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:22.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:22.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.360][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-28 03:19:22.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-28 03:19:22.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.365][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-03-28 03:19:22.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-03-28 03:19:22.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.371][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-03-28 03:19:22.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-03-28 03:19:22.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:22.376][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-03-28 03:19:22.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-03-28 03:19:22.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:22.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-03-28 03:19:22.389][biodb::testThat]
biodb.INFO [2024-03-28 03:19:22.390][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-03-28 03:19:22.392][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:19:22.393][biodb::testThat]
biodb.INFO [2024-03-28 03:19:22.404][biodb::testThat]
biodb.INFO [2024-03-28 03:19:22.405][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-03-28 03:19:22.407][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:19:22.408][biodb::testThat]
biodb.INFO [2024-03-28 03:19:22.419][biodb::testThat]
biodb.INFO [2024-03-28 03:19:22.420][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-03-28 03:19:22.422][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:19:22.423][biodb::testThat]
biodb.DEBUG[2024-03-28 03:19:22.428][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-03-28 03:19:24.892][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-03-28 03:19:34.127][biodb::testThat]
biodb.INFO [2024-03-28 03:19:34.128][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-03-28 03:19:34.130][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:19:34.131][biodb::testThat]
biodb.DEBUG[2024-03-28 03:19:35.467][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[2024-03-28 03:19:39.347][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:39.349][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:39.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:39.351][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:39.353][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:39.354][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:39.356][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:39.357][ef$get] fields variable is a list.
biodb.INFO [2024-03-28 03:19:39.360][biodb::testThat]
biodb.INFO [2024-03-28 03:19:39.361][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2024-03-28 03:19:39.362][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:19:39.364][biodb::testThat]
biodb.TRACE[2024-03-28 03:19:39.379][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:39.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:39.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:39.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:39.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:39.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:39.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:39.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:39.391][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:39.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:39.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:39.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:39.533][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[2024-03-28 03:19:39.538][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:19:39.540][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-03-28 03:19:39.542][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:39.544][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-03-28 03:19:39.634][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[2024-03-28 03:19:39.638][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:19:39.640][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-03-28 03:19:39.642][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:39.644][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-03-28 03:19:39.662][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-28 03:19:39.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-28 03:19:39.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:39.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:39.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:39.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:39.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:39.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:39.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:39.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:39.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:39.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:39.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:39.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:39.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:39.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:39.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:39.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:39.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:39.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:39.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:39.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:39.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:39.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:39.709][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[2024-03-28 03:19:39.713][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:19:39.715][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-03-28 03:19:39.717][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:39.719][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-03-28 03:19:39.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:39.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:39.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:39.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:39.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:39.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:39.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:39.737][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-03-28 03:19:39.813][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:39.815][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-03-28 03:19:39.817][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:19:39.818][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:19:39.820][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:39.821][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:19:39.823][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:19:39.824][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:19:39.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:39.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:39.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:39.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:39.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:39.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:39.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:39.843][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2024-03-28 03:19:39.847][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:19:39.848][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:19:39.850][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2024-03-28 03:19:41.681][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2024-03-28 03:19:42.459][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:19:42.462][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2024-03-28 03:19:42.481][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2024-03-28 03:19:42.484][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2024-03-28 03:19:42.486][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:19:42.488][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:42.489][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:42.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:42.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:42.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:42.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:42.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:42.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:42.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:42.507][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:42.509][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:42.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.511][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:42.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:42.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.518][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:42.520][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:42.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.522][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.524][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:42.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:42.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.529][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:42.531][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:42.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.533][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.536][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:42.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:42.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.541][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:42.542][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:42.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.545][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:42.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:42.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.552][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:42.554][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:42.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.556][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.558][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:42.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:42.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.563][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:42.565][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:42.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.567][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.569][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:42.571][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.573][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.575][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:42.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.580][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:42.582][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:42.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.584][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:42.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:42.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.592][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:42.593][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:42.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.596][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.598][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:42.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:42.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.604][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:42.605][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:42.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.608][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.610][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:42.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:42.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.628][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:42.629][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:42.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.632][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.633][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:42.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:42.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:42.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:42.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:42.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:42.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:42.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:42.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:42.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:42.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:42.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:42.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:42.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:42.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:42.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:42.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:42.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:42.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:42.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:42.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:42.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:42.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:42.694][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-03-28 03:19:42.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:42.725][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[2024-03-28 03:19:42.729][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:19:42.731][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-03-28 03:19:42.732][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:42.735][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-03-28 03:19:42.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:42.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:42.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:42.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:42.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:42.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:42.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:42.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:42.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:42.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:42.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:42.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:42.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:42.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:42.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:42.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:42.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:42.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:42.800][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-03-28 03:19:42.801][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:42.803][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-03-28 03:19:42.805][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:19:42.807][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:19:42.808][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:42.809][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:19:42.811][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:19:42.813][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:19:42.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:42.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:42.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:42.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:42.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:42.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:42.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:42.846][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2024-03-28 03:19:42.876][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:19:42.877][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:19:42.899][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2024-03-28 03:19:43.676][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2024-03-28 03:19:44.448][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:19:44.451][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2024-03-28 03:19:44.455][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2024-03-28 03:19:44.459][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2024-03-28 03:19:44.460][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:19:44.462][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:44.464][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:44.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:44.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:44.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:44.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:44.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:44.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:44.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:44.481][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:44.483][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:44.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.485][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:44.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:44.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.493][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:44.494][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:44.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.497][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.498][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:44.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:44.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.504][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:44.505][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:44.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.508][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.510][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:44.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:44.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.516][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:44.517][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:44.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.520][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:44.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:44.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.527][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:44.528][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:44.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.531][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:44.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:44.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.538][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:44.539][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:44.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.542][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.544][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:44.545][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.548][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.549][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:44.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.555][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:44.556][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:44.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.559][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:44.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:44.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.566][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:44.567][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:44.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.570][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.572][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:44.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:44.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.577][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:44.579][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:44.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.581][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.583][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:44.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:44.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.588][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:44.590][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:44.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.592][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.594][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:44.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:44.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:44.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:44.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:44.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:44.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:44.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:44.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:44.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:44.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:44.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:44.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:44.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:44.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:44.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:44.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:44.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:44.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:44.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:44.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:44.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:44.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:44.667][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-03-28 03:19:44.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:44.707][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[2024-03-28 03:19:44.711][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:19:44.713][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-03-28 03:19:44.715][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:44.716][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-03-28 03:19:44.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:44.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:44.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:44.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:44.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:44.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:44.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:44.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:44.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:44.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:44.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:44.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:44.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:44.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:44.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:44.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:44.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:44.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:44.764][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-03-28 03:19:44.766][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:44.768][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-03-28 03:19:44.770][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:19:44.771][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:19:44.773][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:44.774][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:19:44.775][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:19:44.777][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:19:44.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:44.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:44.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:44.789][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:44.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:44.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:44.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:44.794][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2024-03-28 03:19:44.798][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:19:44.799][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:19:44.801][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2024-03-28 03:19:45.573][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2024-03-28 03:19:46.350][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:19:46.352][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2024-03-28 03:19:46.357][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2024-03-28 03:19:46.360][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2024-03-28 03:19:46.362][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:19:46.364][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:46.365][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:46.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:46.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:46.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:46.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:46.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:46.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:46.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:46.383][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:46.384][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:46.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.387][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:46.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:46.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.394][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:46.396][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:46.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.398][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.400][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:46.402][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:46.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.404][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.406][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:46.408][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:46.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.411][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.412][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:46.414][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:46.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.416][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.418][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:46.420][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:46.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.422][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.424][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:46.426][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:46.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.428][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.430][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:46.432][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:46.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.434][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.436][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:46.437][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:46.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.440][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:46.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:46.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.461][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:46.462][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:46.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.465][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.467][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:46.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:46.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.472][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:46.474][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:46.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.477][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:46.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:46.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:46.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:46.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:46.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:46.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:46.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:46.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:46.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:46.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:46.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:46.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:46.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:46.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:46.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:46.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:46.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:46.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:46.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:46.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:46.535][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-03-28 03:19:46.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:46.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:46.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:46.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:46.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:46.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:46.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:46.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:46.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:46.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:46.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:46.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:46.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:46.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:46.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:46.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:46.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:46.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:46.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:46.577][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.DEBUG[2024-03-28 03:19:46.579][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-03-28 03:19:46.580][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:46.583][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-03-28 03:19:46.584][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:19:46.586][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:19:46.587][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:46.589][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:19:46.590][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:19:46.591][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:19:46.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:46.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:46.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:46.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:46.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:46.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:46.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:46.609][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2024-03-28 03:19:46.613][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:19:46.614][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:19:46.616][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2024-03-28 03:19:47.390][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2024-03-28 03:19:48.162][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:19:48.165][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2024-03-28 03:19:48.169][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2024-03-28 03:19:48.173][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2024-03-28 03:19:48.175][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:19:48.176][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:48.178][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:48.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:48.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:48.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:48.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:48.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:48.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:48.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:48.196][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.197][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.200][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.207][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:48.209][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:48.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.212][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.213][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:48.215][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:48.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.217][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.219][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:48.221][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:48.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.224][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.225][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.227][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.229][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.231][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.233][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.235][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.237][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:48.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.241][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.243][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:48.244][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:48.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.259][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.261][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:48.262][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:48.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.265][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.267][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:48.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:48.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.272][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:48.274][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:48.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.277][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.279][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:48.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:48.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.284][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:48.285][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:48.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.288][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:48.343][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-03-28 03:19:48.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:48.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:48.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:48.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:48.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:48.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:48.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:48.384][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[2024-03-28 03:19:48.385][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-03-28 03:19:48.386][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:48.389][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-03-28 03:19:48.390][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:48.393][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2024-03-28 03:19:48.394][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:48.396][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:48.398][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:48.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:48.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:48.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:48.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:48.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:48.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:48.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:48.415][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.417][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.419][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.427][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:48.428][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:48.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.431][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.432][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:48.434][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:48.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.437][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.438][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:48.440][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:48.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.443][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.444][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.446][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.448][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.450][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.451][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.454][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.456][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:48.457][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.460][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.461][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:48.463][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:48.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.465][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.467][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:48.469][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:48.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.471][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.474][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:48.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:48.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.480][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:48.481][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:48.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.484][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.486][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:48.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:48.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.491][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:48.493][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:48.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.495][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:48.561][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-03-28 03:19:48.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:48.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:48.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:48.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:48.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:48.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:48.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:48.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:48.603][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-03-28 03:19:48.605][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:48.607][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-03-28 03:19:48.609][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:48.611][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2024-03-28 03:19:48.613][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:48.615][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:48.616][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:48.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:48.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:48.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:48.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:48.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:48.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:48.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:48.634][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.635][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.638][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.645][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:48.647][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:48.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.649][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.651][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:48.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:48.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.656][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:48.658][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:48.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.665][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.667][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:48.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:48.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.674][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:48.675][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:48.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.678][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.680][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:48.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:48.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.686][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.688][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.690][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.698][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.700][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.702][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.704][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.710][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:48.712][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.714][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.716][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:48.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.722][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:48.724][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:48.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.726][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:48.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:48.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.734][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:48.736][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:48.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.739][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:48.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:48.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.747][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:48.748][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:48.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.751][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.753][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:48.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:48.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.759][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:48.777][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:48.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.780][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.782][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:48.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:48.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:48.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:48.844][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-03-28 03:19:48.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:48.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:48.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:48.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:48.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:48.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:48.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:48.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:48.877][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-03-28 03:19:48.878][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:48.881][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-03-28 03:19:48.882][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:48.885][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2024-03-28 03:19:48.887][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:48.889][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:48.891][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:48.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:48.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:48.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:48.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:48.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:48.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:48.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:48.909][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.911][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.914][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:48.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:48.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.922][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:48.923][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:48.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.926][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.928][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:48.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:48.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.934][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:48.935][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:48.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.938][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.940][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:48.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:48.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.946][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:48.947][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:48.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.950][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:48.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:48.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.957][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.959][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.961][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:48.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.969][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.970][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.973][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.975][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:48.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.980][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:48.982][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.984][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.986][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:48.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:48.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.992][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:48.993][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:48.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:48.996][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:48.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:48.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.003][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:49.005][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:49.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.007][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:49.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:49.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.015][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:49.016][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:49.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.019][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.021][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:49.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:49.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.026][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:49.036][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:49.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.039][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.040][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:49.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:49.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:49.102][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-03-28 03:19:49.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:49.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:49.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:49.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:49.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:49.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:49.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:49.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:49.136][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-03-28 03:19:49.138][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:49.140][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-03-28 03:19:49.142][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:49.144][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2024-03-28 03:19:49.146][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:49.147][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:49.149][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:49.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:49.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:49.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:49.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:49.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:49.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:49.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:49.167][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.168][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.171][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.179][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:49.180][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:49.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.183][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.185][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:49.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:49.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.191][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:49.192][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:49.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.195][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.197][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:49.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:49.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.203][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:49.204][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:49.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.207][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:49.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:49.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.214][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.216][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.218][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.226][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:49.227][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:49.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.230][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.231][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:49.233][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.236][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.237][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:49.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.243][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.245][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.247][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.255][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:49.256][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:49.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.259][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.261][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:49.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:49.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.266][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:49.268][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:49.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.271][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.272][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:49.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:49.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.278][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:49.279][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:49.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.282][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.284][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:49.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:49.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:49.355][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-03-28 03:19:49.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:49.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:49.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:49.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:49.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:49.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:49.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:49.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:49.387][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-03-28 03:19:49.389][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:49.391][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-03-28 03:19:49.393][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:49.395][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2024-03-28 03:19:49.397][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:49.399][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:49.400][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:49.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:49.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:49.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:49.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:49.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:49.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:49.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:49.419][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.420][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.423][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.431][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:49.432][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:49.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.435][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.437][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:49.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:49.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.443][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:49.445][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:49.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.447][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.449][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:49.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:49.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.455][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:49.456][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:49.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.459][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.461][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:49.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:49.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.467][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.468][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.471][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.473][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.478][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:49.480][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:49.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.483][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.484][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:49.486][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.489][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.491][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:49.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.497][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.499][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.502][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.510][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:49.512][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:49.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.514][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.516][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:49.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:49.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.522][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:49.524][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:49.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.526][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.528][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:49.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:49.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.534][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:49.536][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:49.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.538][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.540][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:49.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:49.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:49.615][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-03-28 03:19:49.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:49.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:49.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:49.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:49.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:49.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:49.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:49.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:49.650][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-03-28 03:19:49.651][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:49.653][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-03-28 03:19:49.655][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:49.658][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2024-03-28 03:19:49.660][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:49.661][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:49.663][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:49.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:49.667][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:49.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:49.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:49.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:49.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:49.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:49.682][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.683][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.686][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.694][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:49.696][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:49.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.698][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.700][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:49.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:49.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.706][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:49.708][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:49.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.711][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.712][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:49.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:49.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.719][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:49.720][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:49.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.723][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.725][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:49.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:49.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.731][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.733][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.735][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.744][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:49.745][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:49.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.748][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.750][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:49.752][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.754][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.756][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:49.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.762][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.764][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.766][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:49.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.774][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:49.776][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:49.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.779][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.781][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:49.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:49.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.787][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:49.788][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:49.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.791][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.793][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:49.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:49.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.799][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:49.800][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:49.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.803][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.805][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:49.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:49.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:49.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:49.877][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-03-28 03:19:49.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:49.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:49.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:49.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:49.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:49.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:49.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:49.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:49.912][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[2024-03-28 03:19:49.914][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-03-28 03:19:49.915][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:49.917][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-03-28 03:19:49.919][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:49.922][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2024-03-28 03:19:49.924][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:49.925][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:49.927][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:49.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:49.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:49.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:49.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:49.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:49.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:49.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:49.945][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.947][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.950][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:49.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:49.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.957][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:49.959][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:49.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.961][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.963][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:49.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:49.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.969][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:49.970][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:49.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.973][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:49.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:49.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.981][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:49.982][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:49.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.985][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:49.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:49.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.992][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.994][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:49.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:49.996][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:49.998][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:50.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:50.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.004][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:50.005][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:50.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.008][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.010][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:50.011][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.014][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.016][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:50.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.022][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.023][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.026][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.034][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:50.035][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:50.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.038][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:50.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:50.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.045][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:50.047][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:50.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.049][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.051][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:50.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:50.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.057][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:50.058][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:50.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.061][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.063][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:50.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:50.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:50.134][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-03-28 03:19:50.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:50.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:50.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:50.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:50.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:50.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:50.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:50.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:50.167][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-03-28 03:19:50.168][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:50.170][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-03-28 03:19:50.172][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:50.174][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2024-03-28 03:19:50.176][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:50.178][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:50.179][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:50.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:50.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:50.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:50.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:50.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:50.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:50.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:50.198][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.199][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.202][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.209][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:50.211][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:50.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.213][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.215][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:50.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:50.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.221][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:50.222][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:50.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.225][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.227][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:50.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:50.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.233][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:50.234][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:50.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.237][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:50.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:50.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.245][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:50.246][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:50.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.249][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:50.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:50.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.257][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:50.258][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:50.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.261][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.263][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:50.264][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.267][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.269][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:50.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.275][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.276][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.279][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.287][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:50.288][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:50.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.291][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.293][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:50.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:50.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.299][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:50.301][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:50.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.304][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.305][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:50.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:50.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.311][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:50.313][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:50.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.316][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.318][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:50.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:50.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:50.391][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-03-28 03:19:50.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:50.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:50.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:50.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:50.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:50.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:50.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:50.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:50.425][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-03-28 03:19:50.427][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:50.429][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-03-28 03:19:50.431][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:50.433][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2024-03-28 03:19:50.435][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:50.437][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:50.438][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:50.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:50.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:50.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:50.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:50.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:50.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:50.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:50.457][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.459][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.461][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.469][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:50.470][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:50.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.473][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.475][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:50.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:50.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.481][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:50.483][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:50.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.485][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.487][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:50.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:50.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.493][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:50.495][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:50.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.497][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.499][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:50.501][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:50.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.504][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.506][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:50.508][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:50.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.511][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.512][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:50.514][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.517][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.519][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:50.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.525][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.526][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.529][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.537][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:50.538][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:50.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.541][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.543][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:50.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:50.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.549][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:50.550][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:50.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.553][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.555][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:50.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:50.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.561][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:50.563][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:50.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.565][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:50.667][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-03-28 03:19:50.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:50.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:50.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:50.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:50.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:50.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:50.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:50.699][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[2024-03-28 03:19:50.700][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-03-28 03:19:50.702][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:50.705][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-03-28 03:19:50.706][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:50.709][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2024-03-28 03:19:50.711][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:50.713][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:50.714][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:50.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:50.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:50.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:50.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:50.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:50.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:50.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:50.733][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.735][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.737][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.745][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:50.747][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:50.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.750][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.752][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:50.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:50.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.758][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:50.759][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:50.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.762][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.764][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:50.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:50.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.770][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:50.771][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:50.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.774][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.776][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:50.778][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:50.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.781][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.783][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:50.784][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:50.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.787][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.789][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:50.790][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.793][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.795][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:50.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.801][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.802][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.806][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:50.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.813][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:50.815][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:50.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.818][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.820][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:50.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:50.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.826][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:50.827][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:50.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.830][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.832][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:50.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:50.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.838][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:50.839][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:50.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.842][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:50.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:50.903][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-03-28 03:19:50.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:50.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:50.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:50.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:50.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:50.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:50.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:50.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:50.945][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[2024-03-28 03:19:50.946][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-03-28 03:19:50.948][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:50.951][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-03-28 03:19:50.953][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:50.956][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2024-03-28 03:19:50.958][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:50.960][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:50.962][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:50.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:50.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:50.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:50.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:50.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:50.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:50.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:50.982][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.984][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.987][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:50.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:50.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:50.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:50.997][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:50.998][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:51.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.001][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.003][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:51.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:51.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.009][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:51.010][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:51.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.013][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.015][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:51.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:51.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.021][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:51.023][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:51.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.026][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.027][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:51.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:51.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.033][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.035][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.038][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.046][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:51.047][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:51.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.050][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.052][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:51.053][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.056][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.058][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:51.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.064][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.066][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.068][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.077][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:51.079][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:51.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.082][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:51.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:51.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.090][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:51.092][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:51.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.095][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.097][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:51.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:51.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.103][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:51.105][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:51.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.108][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.110][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:51.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:51.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:51.176][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-03-28 03:19:51.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:51.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:51.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:51.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:51.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:51.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:51.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:51.220][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[2024-03-28 03:19:51.222][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-03-28 03:19:51.224][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:51.226][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-03-28 03:19:51.228][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:51.231][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2024-03-28 03:19:51.233][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:51.235][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:51.237][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:51.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:51.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:51.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:51.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:51.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:51.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:51.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:51.257][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.259][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.262][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.269][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:51.271][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:51.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.273][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.275][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:51.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:51.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.281][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:51.282][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:51.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.285][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.287][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:51.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:51.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.293][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:51.294][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:51.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.297][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:51.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:51.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.304][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.306][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.308][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.316][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:51.317][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:51.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.320][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.321][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:51.323][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.325][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.327][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:51.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.333][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.334][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.337][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.344][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:51.346][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:51.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.348][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.350][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:51.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:51.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.356][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:51.357][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:51.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.360][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.362][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:51.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:51.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.367][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:51.369][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:51.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.371][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.373][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:51.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:51.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:51.433][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-03-28 03:19:51.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:51.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:51.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:51.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:51.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:51.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:51.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:51.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:51.475][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-03-28 03:19:51.476][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:51.479][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-03-28 03:19:51.480][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:19:51.483][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2024-03-28 03:19:51.485][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:51.486][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:51.488][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:51.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:51.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:51.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:51.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:51.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:51.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:51.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:51.506][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.508][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.510][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.517][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:51.519][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:51.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.521][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.523][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:51.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:51.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.529][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:51.530][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:51.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.533][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.534][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:51.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:51.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.540][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:51.541][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:51.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.544][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:51.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:51.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.551][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.553][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.555][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:51.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.562][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:51.564][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:51.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.566][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.568][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:51.570][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.572][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.574][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:51.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.579][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.581][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.583][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:51.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.591][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:51.592][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:51.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.595][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.596][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:51.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:51.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.602][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:51.603][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:51.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.606][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.608][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:51.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:51.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.613][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:51.615][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:51.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.617][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.619][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:51.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:51.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:51.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:51.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:51.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:51.679][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-03-28 03:19:51.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:51.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:51.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:51.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:51.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:51.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:51.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:51.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:51.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:51.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:51.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:51.720][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-03-28 03:19:51.722][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:51.724][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.INFO [2024-03-28 03:19:51.726][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2024-03-28 03:19:51.727][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:19:51.729][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:19:51.730][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:51.732][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:19:51.733][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:19:51.735][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:19:51.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:51.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:51.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:51.747][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:51.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:51.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:51.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:51.753][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2024-03-28 03:19:51.756][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:19:51.758][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:19:51.760][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2024-03-28 03:19:52.537][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2024-03-28 03:19:54.781][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:19:54.784][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2024-03-28 03:19:54.789][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2024-03-28 03:19:54.793][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2024-03-28 03:19:54.795][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:19:54.797][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:54.799][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:54.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:54.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:54.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:54.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:54.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:54.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:54.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:54.819][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:54.820][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:54.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.823][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:54.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:54.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.831][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:54.833][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:54.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.836][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.838][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:54.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:54.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.844][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:54.845][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:54.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.848][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.850][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:54.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:54.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.856][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:54.858][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:54.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.861][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.863][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:54.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:54.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.869][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:54.870][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:54.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.873][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.875][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:54.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:54.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.881][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:54.882][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:54.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.885][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.887][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:54.888][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:54.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.891][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.893][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:54.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:54.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.902][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:54.905][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:54.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.908][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:54.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:54.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.917][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:54.919][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:54.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.922][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:54.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:54.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.931][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:54.932][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:54.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.935][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.937][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:54.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:54.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.943][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:54.945][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:54.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.948][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.950][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:54.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:54.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:54.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:54.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:54.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:54.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:54.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:54.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:54.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:54.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:54.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:54.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:54.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:54.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:54.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:54.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:54.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:54.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:55.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:55.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:55.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:55.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:55.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:55.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:55.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:55.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:55.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:55.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:55.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:55.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:55.042][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-03-28 03:19:55.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:55.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:55.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:55.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:55.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:55.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:55.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:55.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:55.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:55.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:55.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:55.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:55.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:55.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:55.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:55.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:55.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:55.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:55.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:55.081][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-03-28 03:19:55.082][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:55.085][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-03-28 03:19:55.087][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:19:55.088][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:19:55.090][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:55.092][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:19:55.093][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:19:55.095][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:19:55.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:55.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:55.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:55.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:55.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:55.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:55.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:55.115][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.INFO [2024-03-28 03:19:55.120][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2024-03-28 03:19:55.121][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:19:55.123][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:19:55.125][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2024-03-28 03:19:55.899][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2024-03-28 03:19:56.659][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:19:56.662][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2024-03-28 03:19:56.666][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2024-03-28 03:19:56.669][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2024-03-28 03:19:56.671][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:19:56.673][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:19:56.675][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:19:56.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:56.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:56.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:56.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:56.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:56.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:56.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:19:56.693][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:56.695][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:56.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.697][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:56.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:56.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.705][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:56.706][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:56.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.709][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.711][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:19:56.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:19:56.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.717][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:56.718][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:56.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.721][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.723][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:19:56.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:19:56.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.729][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:56.730][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:56.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.733][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:19:56.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:19:56.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.740][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:56.741][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:56.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.744][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:19:56.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:19:56.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.751][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:56.753][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:19:56.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.755][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.757][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:56.758][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:56.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.761][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.763][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:19:56.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:56.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.768][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:56.770][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:56.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.772][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:56.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:19:56.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.780][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:56.781][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:56.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.784][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.786][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:19:56.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:19:56.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.791][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:56.793][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:56.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.795][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.797][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:19:56.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:19:56.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.803][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:56.804][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:56.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.807][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.808][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:19:56.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:19:56.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:56.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:56.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:56.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:56.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:56.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:56.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:19:56.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:19:56.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:56.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:56.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:56.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:56.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:56.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:56.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:56.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:56.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:56.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:56.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:19:56.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:19:56.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:56.880][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-03-28 03:19:56.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:56.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:56.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:56.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:56.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:19:56.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:56.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:19:56.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:19:56.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:19:56.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:56.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:56.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:56.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:56.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:56.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:56.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:19:56.911][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-03-28 03:19:56.912][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:19:56.914][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-03-28 03:19:56.916][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:19:56.917][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:19:56.919][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:19:56.920][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:19:56.922][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:19:56.923][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:19:56.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:19:56.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:19:56.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:19:56.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:19:56.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:19:56.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:19:56.939][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[2024-03-28 03:19:56.941][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2024-03-28 03:19:56.945][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:19:56.946][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:19:56.948][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2024-03-28 03:19:57.720][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2024-03-28 03:20:00.369][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:00.372][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2024-03-28 03:20:00.377][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2024-03-28 03:20:00.380][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2024-03-28 03:20:00.382][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:20:00.384][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:20:00.386][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:20:00.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:00.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:00.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:00.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:00.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:00.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:00.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:00.404][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:00.406][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:00.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.408][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:00.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:00.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.416][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:00.418][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:00.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.420][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.422][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:00.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:00.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.428][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:00.430][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:00.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.433][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.436][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:00.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:00.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.442][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:00.443][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:00.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.446][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:00.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:00.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.454][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:00.455][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:00.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.458][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:00.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:00.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.466][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:00.468][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:00.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.470][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.472][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:00.474][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:00.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.477][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.478][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:00.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:00.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.484][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:00.486][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:00.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.489][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:00.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:00.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.497][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:00.511][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:00.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.514][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.516][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:00.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:00.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.522][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:00.524][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:00.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.527][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.529][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:00.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:00.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.536][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:00.537][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:00.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.540][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.542][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:00.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:00.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:00.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:00.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:00.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:00.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:00.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:00.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:00.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:00.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:00.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:00.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:00.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:00.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:00.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:00.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:00.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:00.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:00.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:00.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:00.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:00.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:00.607][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-03-28 03:20:00.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:00.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:00.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:00.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:00.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:00.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:00.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:00.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:00.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:00.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:00.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:00.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:00.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:00.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:00.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:00.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:00.647][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-03-28 03:20:00.649][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:20:00.651][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-03-28 03:20:00.653][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:20:00.655][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:20:00.656][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:20:00.658][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:20:00.659][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:20:00.661][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:20:00.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:00.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:00.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:00.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:00.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:00.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:00.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:00.680][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2024-03-28 03:20:00.684][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:00.685][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:00.687][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2024-03-28 03:20:01.445][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2024-03-28 03:20:03.485][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:03.487][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2024-03-28 03:20:03.492][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2024-03-28 03:20:03.495][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2024-03-28 03:20:03.497][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:20:03.499][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:20:03.501][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:20:03.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:03.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:03.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:03.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:03.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:03.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:03.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:03.519][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:03.521][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:03.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.523][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:03.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:03.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.531][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:03.532][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:03.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.535][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.537][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:03.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:03.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.543][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:03.544][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:03.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.547][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.549][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:03.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:03.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.555][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:03.556][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:03.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.559][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:03.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:03.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.566][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:03.576][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:03.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.584][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:03.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:03.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.592][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:03.593][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:03.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.596][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.597][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:03.599][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:03.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.602][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.604][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:03.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:03.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.609][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:03.611][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:03.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.613][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:03.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:03.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.621][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:03.622][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:03.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.625][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.627][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:03.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:03.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.633][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:03.634][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:03.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.637][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.639][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:03.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:03.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.644][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:03.646][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:03.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.649][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.650][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:03.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:03.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:03.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:03.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:03.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:03.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:03.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:03.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:03.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:03.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:03.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:03.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:03.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:03.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:03.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:03.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:03.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:03.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:03.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:03.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:03.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:03.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:03.712][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-03-28 03:20:03.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:03.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:03.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:03.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:03.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:03.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:03.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:03.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:03.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:03.755][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[2024-03-28 03:20:03.759][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:03.761][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:03.764][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-03-28 03:20:04.668][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-03-28 03:20:06.309][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:06.312][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-03-28 03:20:06.317][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-03-28 03:20:06.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.781][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:06.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:06.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:06.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:06.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:06.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:06.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:06.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:06.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:06.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:06.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:06.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:07.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:07.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:07.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:07.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:07.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:07.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:07.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:07.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:07.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:07.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:07.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:07.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:07.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:07.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:07.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:07.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:07.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:07.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:07.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:07.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:07.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:07.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:07.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:07.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:07.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:07.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:07.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:07.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:07.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:07.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:07.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:07.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:07.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:07.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:07.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:07.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:07.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:07.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:07.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:07.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:07.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:07.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:07.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:07.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:07.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:07.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:07.125][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:07.130][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:07.132][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:07.135][private$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[2024-03-28 03:20:07.908][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[2024-03-28 03:20:08.652][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:08.654][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2024-03-28 03:20:08.660][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2024-03-28 03:20:08.664][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:08.669][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:08.671][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:08.673][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-03-28 03:20:09.415][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-03-28 03:20:10.202][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:10.205][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2024-03-28 03:20:10.211][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2024-03-28 03:20:10.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:10.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:10.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:10.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:10.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:10.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:10.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:10.231][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-03-28 03:20:10.232][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:20:10.235][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-03-28 03:20:10.236][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:20:10.238][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:20:10.240][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:20:10.241][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:20:10.243][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:20:10.244][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:20:10.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:10.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:10.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:10.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:10.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:10.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:10.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:10.264][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2024-03-28 03:20:10.268][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:10.269][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:10.276][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2024-03-28 03:20:11.032][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2024-03-28 03:20:11.793][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:11.796][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2024-03-28 03:20:11.801][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2024-03-28 03:20:11.806][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2024-03-28 03:20:11.808][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:20:11.810][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:20:11.812][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:20:11.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:11.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:11.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:11.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:11.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:11.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:11.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:11.834][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:11.836][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:11.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.839][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:11.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:11.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.848][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:11.849][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:11.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.852][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.854][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:11.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:11.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.861][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:11.862][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:11.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.865][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.868][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:11.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:11.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.874][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:11.876][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:11.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.879][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:11.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:11.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.888][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:11.889][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:11.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.893][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.895][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:11.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:11.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.901][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:11.903][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:11.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.906][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.908][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:11.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:11.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.914][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:11.916][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:11.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.919][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.921][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:11.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:11.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.927][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:11.929][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:11.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.932][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:11.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:11.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.940][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:11.942][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:11.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.945][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:11.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:11.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.954][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:11.956][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:11.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.959][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.960][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:11.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:11.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.967][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:11.969][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:11.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.972][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.973][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:11.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:11.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:11.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:11.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:11.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:11.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:11.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:11.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:11.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:11.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:12.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:12.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:12.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:12.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:12.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:12.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:12.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:12.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:12.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:12.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:12.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:12.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:12.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:12.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:12.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:12.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:12.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:12.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:12.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:12.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:12.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:12.063][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-03-28 03:20:12.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:12.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:12.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:12.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:12.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:12.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:12.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:12.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:12.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:12.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:12.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:12.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:12.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:12.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:12.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:12.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:12.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:12.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:12.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:12.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:12.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:12.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:12.130][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-03-28 03:20:12.131][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:20:12.134][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-03-28 03:20:12.136][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:20:12.137][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:20:12.139][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:20:12.140][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:20:12.142][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:20:12.143][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:20:12.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:12.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:12.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:12.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:12.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:12.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:12.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:12.163][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2024-03-28 03:20:12.166][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:12.168][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:12.170][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2024-03-28 03:20:12.946][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2024-03-28 03:20:13.693][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:13.696][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2024-03-28 03:20:13.701][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2024-03-28 03:20:13.705][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2024-03-28 03:20:13.707][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:20:13.709][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:20:13.711][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:20:13.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:13.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:13.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:13.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:13.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:13.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:13.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:13.729][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:13.731][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:13.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.733][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:13.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:13.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.741][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:13.742][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:13.744][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.745][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.747][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:13.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:13.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.753][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:13.755][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:13.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.757][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.759][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:13.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:13.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.765][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:13.767][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:13.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.769][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.771][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:13.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:13.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.777][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:13.779][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:13.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.781][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:13.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:13.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.789][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:13.791][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:13.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.793][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.795][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:13.797][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:13.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.813][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.815][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:13.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:13.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.820][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.822][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.825][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.832][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:13.834][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:13.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.836][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:13.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:13.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.844][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:13.846][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:13.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.848][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.850][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:13.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:13.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.856][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:13.857][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:13.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.860][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.862][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:13.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:13.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:13.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:13.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:13.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:13.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:13.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:13.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:13.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:13.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:13.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:13.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:13.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:13.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:13.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:13.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:13.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:13.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:13.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:13.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:13.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:13.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:13.924][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-03-28 03:20:13.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:13.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:13.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:13.967][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:13.971][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:13.973][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-03-28 03:20:13.975][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:13.977][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-03-28 03:20:13.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:13.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:13.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:13.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:13.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:13.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:13.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:13.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:13.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.612][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.691][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:14.696][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:14.698][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-03-28 03:20:14.700][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:14.702][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-03-28 03:20:14.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:14.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:14.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:14.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:14.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:14.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:14.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:14.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:14.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:14.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:14.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:14.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:15.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:15.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.394][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-03-28 03:20:15.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-03-28 03:20:15.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-03-28 03:20:15.409][biodb::testThat]
biodb.INFO [2024-03-28 03:20:15.411][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-03-28 03:20:15.412][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:15.413][biodb::testThat]
biodb.TRACE[2024-03-28 03:20:15.417][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-28 03:20:15.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-28 03:20:15.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:15.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:15.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:15.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:15.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:15.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:15.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:15.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:15.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:15.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:15.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:15.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:15.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:15.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:15.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:15.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:15.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:15.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:15.465][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:15.469][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:15.471][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:15.473][private$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[2024-03-28 03:20:17.545][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[2024-03-28 03:20:18.313][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:18.316][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-03-28 03:20:18.321][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-03-28 03:20:18.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:18.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:18.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:18.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:18.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:18.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:18.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:18.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:18.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:18.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:18.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:18.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:18.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:18.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:18.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:18.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:18.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:18.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:18.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:18.357][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[2024-03-28 03:20:18.362][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:18.363][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:18.366][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-03-28 03:20:19.139][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-03-28 03:20:19.893][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:19.896][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-03-28 03:20:19.901][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-03-28 03:20:19.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:19.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:19.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:19.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:19.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:19.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:19.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:19.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:19.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:19.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:19.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:19.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:19.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:19.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:19.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:19.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:19.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:19.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:19.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:19.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:19.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:19.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:19.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:19.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:19.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:19.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:19.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:19.986][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-03-28 03:20:19.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:19.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:19.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:19.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:19.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:19.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:20.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:20.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.013][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.014][private$selectFields]
biodb.TRACE[2024-03-28 03:20:20.015][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:20.017][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:20.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.021][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.023][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.029][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.030][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.032][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.033][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.034][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.037][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.038][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:20.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.069][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-03-28 03:20:20.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:20.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:20.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:20.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:20.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:20.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:20.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:20.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.097][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.098][private$selectFields]
biodb.TRACE[2024-03-28 03:20:20.099][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:20.101][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:20.102][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.103][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.105][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.107][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.109][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.110][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.113][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.114][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.116][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.117][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.118][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.121][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.122][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:20.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.141][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-03-28 03:20:20.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:20.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:20.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:20.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:20.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:20.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:20.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:20.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.167][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.169][private$selectFields]
biodb.TRACE[2024-03-28 03:20:20.170][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:20.171][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:20.172][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.175][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.178][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.179][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.181][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.192][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.193][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.195][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:20.196][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.198][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.200][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.202][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:20.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:20.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.220][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-03-28 03:20:20.221][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-03-28 03:20:20.223][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-03-28 03:20:20.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:20.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:20.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:20.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:20.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:20.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:20.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:20.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:20.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:20.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:20.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:20.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:20.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:20.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:20.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:20.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:20.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:20.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:20.363][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:20.368][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:20.370][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:20.373][private$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[2024-03-28 03:20:21.161][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[2024-03-28 03:20:21.934][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:21.937][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2024-03-28 03:20:21.943][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2024-03-28 03:20:21.948][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[2024-03-28 03:20:21.953][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:21.954][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:21.957][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-03-28 03:20:22.736][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-03-28 03:20:23.510][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:23.513][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2024-03-28 03:20:23.519][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2024-03-28 03:20:23.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:23.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:23.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:23.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:23.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:23.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:23.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:23.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:23.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:23.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:23.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:23.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:23.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:23.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:23.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:23.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:23.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:23.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:23.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:23.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:23.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:23.633][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:23.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:23.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:23.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:23.690][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-03-28 03:20:23.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:23.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:23.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:23.734][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:23.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:23.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:23.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:23.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.750][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.752][private$selectFields]
biodb.TRACE[2024-03-28 03:20:23.753][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:23.754][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:23.756][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.757][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.761][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.763][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.764][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.767][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.768][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.769][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.775][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.776][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:23.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.794][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-03-28 03:20:23.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:23.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:23.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:23.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:23.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:23.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:23.817][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.TRACE[2024-03-28 03:20:23.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.877][private$selectFields]
biodb.TRACE[2024-03-28 03:20:23.879][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:23.880][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:23.881][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.883][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.884][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.887][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.888][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.892][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.908][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.910][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.911][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.914][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.915][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:23.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.933][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-03-28 03:20:23.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:23.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:23.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:23.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:23.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:23.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:23.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:23.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.961][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.962][private$selectFields]
biodb.TRACE[2024-03-28 03:20:23.963][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:23.964][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:23.966][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.967][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.969][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.971][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.973][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.974][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.977][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.979][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:23.981][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.985][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.986][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:23.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:23.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:23.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:23.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.004][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-03-28 03:20:24.006][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-03-28 03:20:24.007][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-03-28 03:20:24.019][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-03-28 03:20:24.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-03-28 03:20:24.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-03-28 03:20:24.028][biodb::testThat]
biodb.INFO [2024-03-28 03:20:24.039][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-03-28 03:20:24.040][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:24.042][biodb::testThat]
biodb.TRACE[2024-03-28 03:20:24.046][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-28 03:20:24.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-28 03:20:24.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:24.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:24.095][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:24.099][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:24.101][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-03-28 03:20:24.103][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:24.105][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-03-28 03:20:24.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:24.141][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:24.145][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:24.148][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-03-28 03:20:24.149][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:24.151][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-03-28 03:20:24.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:24.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:24.218][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-03-28 03:20:24.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.246][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.248][private$selectFields]
biodb.TRACE[2024-03-28 03:20:24.249][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:24.250][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:24.252][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.253][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.255][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.257][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.259][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.260][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.263][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.264][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.266][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.267][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.272][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.273][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:24.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.301][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-03-28 03:20:24.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.315][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.TRACE[2024-03-28 03:20:24.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.328][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.330][private$selectFields]
biodb.TRACE[2024-03-28 03:20:24.331][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:24.332][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:24.334][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.337][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.338][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.339][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.341][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.342][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.345][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.348][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.349][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.350][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.353][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.355][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:24.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.373][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-03-28 03:20:24.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.400][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.402][private$selectFields]
biodb.TRACE[2024-03-28 03:20:24.403][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:24.404][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:24.406][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.407][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.409][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.411][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.413][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.414][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.417][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.418][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.420][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.421][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.423][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.425][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.427][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:24.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.445][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-03-28 03:20:24.447][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-03-28 03:20:24.448][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-03-28 03:20:24.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:24.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:24.505][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:24.510][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:24.512][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-03-28 03:20:24.513][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:24.515][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-03-28 03:20:24.520][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:24.524][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:24.526][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-03-28 03:20:24.528][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:24.530][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-03-28 03:20:24.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.534][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:24.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:24.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.620][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:24.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:24.641][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-03-28 03:20:24.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.670][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.671][private$selectFields]
biodb.TRACE[2024-03-28 03:20:24.673][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:24.674][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:24.675][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.677][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.679][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.681][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.683][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.687][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.690][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.696][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.698][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:24.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.717][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-03-28 03:20:24.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.745][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.746][private$selectFields]
biodb.TRACE[2024-03-28 03:20:24.747][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:24.749][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:24.750][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.751][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.753][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.756][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.757][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.761][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.763][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.765][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.766][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.768][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.770][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.772][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:24.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.791][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-03-28 03:20:24.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.828][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.829][private$selectFields]
biodb.TRACE[2024-03-28 03:20:24.830][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:24.832][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:24.833][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.834][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.836][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.839][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.840][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.842][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.844][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.846][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.847][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:24.848][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.850][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.853][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.854][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:24.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:24.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.872][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-03-28 03:20:24.873][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-03-28 03:20:24.875][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-03-28 03:20:24.886][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-03-28 03:20:24.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-03-28 03:20:24.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-03-28 03:20:24.896][biodb::testThat]
biodb.INFO [2024-03-28 03:20:24.898][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-03-28 03:20:24.899][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:24.900][biodb::testThat]
biodb.TRACE[2024-03-28 03:20:24.904][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-03-28 03:20:24.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-03-28 03:20:24.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:24.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:24.956][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:24.960][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:24.962][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-03-28 03:20:24.964][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:24.966][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-03-28 03:20:24.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:24.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:24.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:24.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:24.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:24.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:24.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:24.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:24.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:24.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:24.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:25.004][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:25.009][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:25.011][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-03-28 03:20:25.013][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:25.015][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-03-28 03:20:25.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:25.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:25.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:25.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:25.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:25.095][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-03-28 03:20:25.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:25.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.124][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.125][private$selectFields]
biodb.TRACE[2024-03-28 03:20:25.127][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:25.128][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:25.130][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.131][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.133][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.135][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.137][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.141][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.143][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.144][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.150][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.152][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:25.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.172][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-03-28 03:20:25.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:25.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.200][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.201][private$selectFields]
biodb.TRACE[2024-03-28 03:20:25.203][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:25.204][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:25.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.209][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.212][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.213][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.215][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.217][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.219][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.220][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.226][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.228][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:25.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.247][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-03-28 03:20:25.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:25.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.276][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.277][private$selectFields]
biodb.TRACE[2024-03-28 03:20:25.279][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:25.280][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:25.282][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.283][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.285][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.288][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.289][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.291][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.294][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.295][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.297][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.298][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.300][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.303][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.304][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:25.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.324][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-03-28 03:20:25.326][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-03-28 03:20:25.327][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-03-28 03:20:25.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:25.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:25.412][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:25.416][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:25.418][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-03-28 03:20:25.420][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:25.422][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-03-28 03:20:25.427][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:25.431][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:25.433][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-03-28 03:20:25.435][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:25.437][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-03-28 03:20:25.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:25.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:25.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:25.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:25.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:25.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:25.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:25.542][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-03-28 03:20:25.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:25.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.572][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.574][private$selectFields]
biodb.TRACE[2024-03-28 03:20:25.575][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:25.577][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:25.578][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.580][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.582][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.585][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.586][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.588][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.591][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.593][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.594][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.596][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.598][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.601][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.602][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:25.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.634][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-03-28 03:20:25.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:25.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.662][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.664][private$selectFields]
biodb.TRACE[2024-03-28 03:20:25.665][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:25.666][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:25.668][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.669][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.671][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.674][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.675][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.677][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.679][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.681][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.682][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.684][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.688][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.689][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:25.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.708][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-03-28 03:20:25.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:25.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.738][private$selectFields]
biodb.TRACE[2024-03-28 03:20:25.739][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-03-28 03:20:25.740][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-03-28 03:20:25.742][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.743][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.745][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.748][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.749][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.751][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.754][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.756][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-03-28 03:20:25.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.762][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.764][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-03-28 03:20:25.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:25.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:25.783][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-03-28 03:20:25.785][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-03-28 03:20:25.786][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-03-28 03:20:25.813][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-03-28 03:20:25.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-03-28 03:20:25.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:25.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-03-28 03:20:25.823][biodb::testThat]
biodb.INFO [2024-03-28 03:20:25.824][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-03-28 03:20:25.826][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:25.827][biodb::testThat]
biodb.DEBUG[2024-03-28 03:20:25.830][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-03-28 03:20:25.831][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:20:25.833][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-03-28 03:20:25.835][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:20:25.837][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:20:25.838][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:20:25.840][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:20:25.841][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:20:25.842][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:20:25.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:25.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:25.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:25.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:25.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:25.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:25.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:25.861][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2024-03-28 03:20:25.865][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:25.866][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:25.868][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2024-03-28 03:20:26.651][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2024-03-28 03:20:27.414][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:27.417][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2024-03-28 03:20:27.422][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2024-03-28 03:20:27.426][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2024-03-28 03:20:27.428][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:20:27.430][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:20:27.432][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:20:27.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:27.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:27.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:27.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:27.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:27.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:27.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:27.451][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:27.453][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:27.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.455][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:27.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:27.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.463][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:27.465][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:27.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.468][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.470][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:27.471][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:27.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.474][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.476][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:27.478][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:27.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.480][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.482][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:27.484][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:27.485][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.486][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.488][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:27.490][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:27.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.493][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.494][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:27.496][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:27.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.499][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.501][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:27.502][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:27.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.505][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.507][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:27.508][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:27.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.511][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.513][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:27.514][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:27.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.517][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.519][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:27.521][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:27.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.523][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:27.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:27.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:27.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:27.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:27.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:27.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:27.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:27.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:27.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:27.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:27.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:27.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:27.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:27.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:27.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:27.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:27.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:27.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:27.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:27.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:27.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:27.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:27.583][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-03-28 03:20:27.584][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-03-28 03:20:27.595][biodb::testThat]
biodb.INFO [2024-03-28 03:20:27.597][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-03-28 03:20:27.598][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:27.599][biodb::testThat]
biodb.DEBUG[2024-03-28 03:20:27.612][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-03-28 03:20:27.614][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-03-28 03:20:27.616][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-03-28 03:20:27.618][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-03-28 03:20:27.620][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2024-03-28 03:20:27.621][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:20:27.623][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:20:27.624][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:20:27.625][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:20:27.627][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:20:27.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:27.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:27.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:27.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:27.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:27.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:27.645][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[2024-03-28 03:20:27.647][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2024-03-28 03:20:27.651][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:27.652][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:27.654][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2024-03-28 03:20:28.427][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2024-03-28 03:20:29.202][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:29.205][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2024-03-28 03:20:29.226][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2024-03-28 03:20:29.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:29.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:29.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:29.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:29.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:29.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:29.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:29.243][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2024-03-28 03:20:29.247][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:29.249][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:29.251][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2024-03-28 03:20:30.006][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2024-03-28 03:20:30.769][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:30.772][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2024-03-28 03:20:30.776][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2024-03-28 03:20:30.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:30.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:30.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:30.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:30.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:30.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:30.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:30.791][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2024-03-28 03:20:30.795][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:30.796][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:30.798][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2024-03-28 03:20:31.536][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2024-03-28 03:20:32.298][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:32.301][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2024-03-28 03:20:32.305][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2024-03-28 03:20:32.309][private$doSaveContentToFile] Saving to cache [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2024-03-28 03:20:32.311][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:20:32.313][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-03-28 03:20:32.314][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-03-28 03:20:32.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:32.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:32.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:32.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:32.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:32.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:32.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:32.332][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.333][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.336][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.344][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:32.345][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:32.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.348][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.349][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:32.351][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:32.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.353][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.355][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:32.357][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:32.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.360][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.361][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:32.363][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:32.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.365][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.367][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:32.369][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:32.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.371][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.373][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:32.374][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:32.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.377][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.379][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:32.380][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:32.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.383][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.384][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:32.386][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:32.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.389][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.390][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:32.392][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:32.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.395][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.396][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:32.398][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:32.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.400][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:32.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:32.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:32.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:32.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:32.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:32.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:32.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:32.459][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.460][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.463][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.470][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:32.472][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:32.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.491][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.493][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:32.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:32.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.499][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:32.501][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:32.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.503][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:32.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:32.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.511][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:32.513][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:32.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.515][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:32.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:32.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.523][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:32.524][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:32.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.527][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:32.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:32.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.535][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:32.536][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:32.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.539][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.541][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:32.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:32.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.547][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:32.549][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:32.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.552][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.553][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:32.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:32.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.559][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:32.561][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:32.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.563][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:32.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:32.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.571][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:32.572][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:32.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.575][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:32.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:32.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.583][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:32.584][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:32.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.587][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.589][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:32.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:32.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.595][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:32.596][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:32.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.599][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.601][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:32.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:32.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:32.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:32.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:32.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:32.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:32.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:32.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:32.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:32.664][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.666][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.669][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.676][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:32.677][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:32.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.680][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.682][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:32.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:32.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.687][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:32.689][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:32.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.691][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.693][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:32.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:32.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.698][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:32.700][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:32.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.702][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:32.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:32.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.710][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:32.711][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:32.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.714][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:32.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:32.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.722][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:32.723][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:32.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.726][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.727][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:32.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:32.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.733][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:32.743][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:32.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.746][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.748][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:32.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:32.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.754][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:32.756][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:32.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.758][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:32.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:32.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.766][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:32.767][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:32.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.770][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:32.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:32.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.777][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:32.779][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:32.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.781][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.783][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:32.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:32.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.789][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:32.790][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:32.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.793][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.794][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:32.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:32.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:32.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:32.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:32.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:32.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:32.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:32.900][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-03-28 03:20:32.901][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-03-28 03:20:32.903][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-03-28 03:20:32.923][biodb::testThat]
biodb.INFO [2024-03-28 03:20:32.924][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-03-28 03:20:32.926][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:32.927][biodb::testThat]
biodb.INFO [2024-03-28 03:20:32.963][biodb::testThat]
biodb.INFO [2024-03-28 03:20:32.964][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-03-28 03:20:32.966][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:32.967][biodb::testThat]
biodb.INFO [2024-03-28 03:20:32.979][biodb::testThat]
biodb.INFO [2024-03-28 03:20:32.980][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-03-28 03:20:32.982][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:32.983][biodb::testThat]
biodb.DEBUG[2024-03-28 03:20:32.987][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:32.992][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:32.994][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:32.997][private$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[2024-03-28 03:20:34.868][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[2024-03-28 03:20:35.870][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:35.873][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2024-03-28 03:20:35.878][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2024-03-28 03:20:35.895][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:35.897][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:35.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:35.900][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:35.901][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:35.903][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:35.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:35.906][ef$get] fields variable is a list.
biodb.INFO [2024-03-28 03:20:35.908][biodb::testThat]
biodb.INFO [2024-03-28 03:20:35.909][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2024-03-28 03:20:35.911][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:35.912][biodb::testThat]
biodb.ERROR[2024-03-28 03:20:35.932][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-03-28 03:20:35.958][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-03-28 03:20:35.977][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-03-28 03:20:35.979][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-03-28 03:20:35.981][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-03-28 03:20:35.982][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-03-28 03:20:35.983][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:35.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:35.986][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:35.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:35.988][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:35.989][FUN] Functions in observer BiodbConfig: [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 [2024-03-28 03:20:36.003][biodb::testContext]
biodb.INFO [2024-03-28 03:20:36.005][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-28 03:20:36.006][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-03-28 03:20:36.008][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-28 03:20:36.009][biodb::testContext]
biodb.INFO [2024-03-28 03:20:36.012][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.11.0.
biodb.DEBUG[2024-03-28 03:20:36.014][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-03-28 03:20:36.019][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:20:36.020][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-03-28 03:20:36.022][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-03-28 03:20:36.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.027][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-03-28 03:20:36.054][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-03-28 03:20:36.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.059][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-03-28 03:20:36.061][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-03-28 03:20:36.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.066][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-03-28 03:20:36.068][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-03-28 03:20:36.069][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-03-28 03:20:36.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.074][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-03-28 03:20:36.076][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-03-28 03:20:36.077][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-03-28 03:20:36.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.083][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-03-28 03:20:36.084][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-03-28 03:20:36.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.090][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-03-28 03:20:36.091][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-03-28 03:20:36.093][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-03-28 03:20:36.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.099][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-03-28 03:20:36.100][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-03-28 03:20:36.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.106][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-03-28 03:20:36.117][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-03-28 03:20:36.124][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-03-28 03:20:36.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.130][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-03-28 03:20:36.132][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-03-28 03:20:36.133][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-03-28 03:20:36.135][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-03-28 03:20:36.136][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-03-28 03:20:36.138][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-03-28 03:20:36.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.144][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-03-28 03:20:36.146][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-03-28 03:20:36.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.152][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-03-28 03:20:36.153][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-03-28 03:20:36.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.159][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-03-28 03:20:36.161][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-03-28 03:20:36.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.167][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-03-28 03:20:36.169][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-03-28 03:20:36.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.173][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[2024-03-28 03:20:36.174][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-03-28 03:20:36.176][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-03-28 03:20:36.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.181][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-03-28 03:20:36.182][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-03-28 03:20:36.188][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-03-28 03:20:36.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.193][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-03-28 03:20:36.195][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-03-28 03:20:36.196][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-03-28 03:20:36.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.202][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-03-28 03:20:36.204][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.206][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-03-28 03:20:36.207][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.209][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:36.210][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.212][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.213][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.215][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.216][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-28 03:20:36.218][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:36.219][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.221][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-03-28 03:20:36.222][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:36.224][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.225][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.227][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:20:36.227][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:20:36.227][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:20:36.227][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-28 03:20:36.227][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-28 03:20:36.228][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:36.229][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:36.231][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:36.232][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:36.233][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:36.235][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:36.236][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.238][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.239][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:36.240][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:36.242][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.243][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.245][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-03-28 03:20:36.247][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.249][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-03-28 03:20:36.250][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.252][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:36.253][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.254][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.256][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.257][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.259][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-28 03:20:36.260][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:36.262][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.263][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-03-28 03:20:36.265][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:36.266][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.267][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.269][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:20:36.269][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:20:36.269][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:20:36.269][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-28 03:20:36.269][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-28 03:20:36.270][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:36.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:36.273][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:36.274][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:36.276][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:36.277][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:36.278][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.280][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.281][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:36.283][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:36.284][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.285][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.287][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-03-28 03:20:36.290][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.291][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-03-28 03:20:36.293][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.294][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:36.295][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.297][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.298][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.300][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.301][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-28 03:20:36.303][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:36.304][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.306][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-03-28 03:20:36.307][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:36.308][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.310][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.311][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.313][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:36.314][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:36.316][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:36.317][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:36.318][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:36.320][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:36.321][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.322][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.324][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:36.325][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:36.327][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.328][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.330][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-03-28 03:20:36.332][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.334][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-03-28 03:20:36.335][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.337][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:36.338][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.339][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.341][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.342][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.344][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-28 03:20:36.345][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:36.347][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.348][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-03-28 03:20:36.349][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:36.351][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.353][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.354][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.356][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:36.357][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:36.358][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:36.360][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:36.361][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:36.363][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:36.364][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.365][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.367][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:36.368][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:36.378][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.380][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:36.382][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:20:36.383][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.384][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[2024-03-28 03:20:36.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.403][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[2024-03-28 03:20:36.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.428][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[2024-03-28 03:20:36.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.434][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[2024-03-28 03:20:36.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.440][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[2024-03-28 03:20:36.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.452][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[2024-03-28 03:20:36.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.472][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[2024-03-28 03:20:36.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.484][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[2024-03-28 03:20:36.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.492][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-03-28 03:20:36.494][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-03-28 03:20:36.496][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-03-28 03:20:36.498][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-03-28 03:20:36.500][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-03-28 03:20:36.502][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-03-28 03:20:36.504][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-03-28 03:20:36.506][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-03-28 03:20:36.508][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-03-28 03:20:36.510][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-03-28 03:20:36.512][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-28 03:20:36.514][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-03-28 03:20:36.516][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-03-28 03:20:36.518][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-03-28 03:20:36.520][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-03-28 03:20:36.522][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-03-28 03:20:36.524][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-03-28 03:20:36.526][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-03-28 03:20:36.528][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-03-28 03:20:36.530][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-03-28 03:20:36.532][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-03-28 03:20:36.534][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-03-28 03:20:36.535][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-03-28 03:20:36.537][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-03-28 03:20:36.539][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-03-28 03:20:36.541][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-03-28 03:20:36.543][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-03-28 03:20:36.545][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-03-28 03:20:36.547][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-03-28 03:20:36.549][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-03-28 03:20:36.552][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-03-28 03:20:36.554][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-03-28 03:20:36.556][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-03-28 03:20:36.558][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-03-28 03:20:36.560][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-03-28 03:20:36.562][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-03-28 03:20:36.564][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-03-28 03:20:36.566][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-03-28 03:20:36.568][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-03-28 03:20:36.569][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-03-28 03:20:36.571][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-03-28 03:20:36.573][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-03-28 03:20:36.575][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-03-28 03:20:36.577][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-03-28 03:20:36.579][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-03-28 03:20:36.581][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-03-28 03:20:36.583][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-03-28 03:20:36.585][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-03-28 03:20:36.587][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-03-28 03:20:36.589][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-03-28 03:20:36.591][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-03-28 03:20:36.593][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-03-28 03:20:36.595][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-03-28 03:20:36.597][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-03-28 03:20:36.599][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-03-28 03:20:36.601][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-03-28 03:20:36.603][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-03-28 03:20:36.615][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-03-28 03:20:36.617][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-03-28 03:20:36.619][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-03-28 03:20:36.621][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-03-28 03:20:36.623][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-03-28 03:20:36.625][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-03-28 03:20:36.627][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-03-28 03:20:36.629][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-03-28 03:20:36.631][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-03-28 03:20:36.633][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-03-28 03:20:36.635][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-03-28 03:20:36.637][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-03-28 03:20:36.639][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-03-28 03:20:36.641][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-03-28 03:20:36.643][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-03-28 03:20:36.645][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-03-28 03:20:36.647][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-03-28 03:20:36.649][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-03-28 03:20:36.651][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-03-28 03:20:36.653][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-03-28 03:20:36.655][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-03-28 03:20:36.657][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-03-28 03:20:36.658][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-03-28 03:20:36.660][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-03-28 03:20:36.662][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-03-28 03:20:36.664][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-03-28 03:20:36.666][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-03-28 03:20:36.668][initialize] This is biodb version 1.11.0.
biodb.DEBUG[2024-03-28 03:20:36.669][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:20:36.671][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.673][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.691][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[2024-03-28 03:20:36.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.708][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[2024-03-28 03:20:36.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.725][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[2024-03-28 03:20:36.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:36.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:36.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:36.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:36.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:36.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:36.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:36.821][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[2024-03-28 03:20:36.823][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-03-28 03:20:36.825][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-03-28 03:20:36.828][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.829][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.830][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.832][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:36.833][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.834][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.845][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.847][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-03-28 03:20:36.849][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-03-28 03:20:36.850][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:36.852][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.853][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-03-28 03:20:36.855][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:36.856][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-03-28 03:20:36.856][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-03-28 03:20:36.856][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-03-28 03:20:36.856][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-03-28 03:20:36.856][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-03-28 03:20:36.856][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-03-28 03:20:36.856][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-03-28 03:20:36.856][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-03-28 03:20:36.856][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-03-28 03:20:36.856][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-03-28 03:20:36.856][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-03-28 03:20:36.857][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:36.859][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:20:36.859][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:20:36.859][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:20:36.860][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-03-28 03:20:36.862][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:36.863][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:36.864][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:36.866][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:36.867][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:36.868][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:36.869][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:20:36.869][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-03-28 03:20:36.871][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:36.872][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:36.873][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:36.875][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-03-28 03:20:36.875][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-03-28 03:20:36.877][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-03-28 03:20:36.879][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-28 03:20:36.881][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-03-28 03:20:36.883][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-03-28 03:20:36.885][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-03-28 03:20:36.887][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-03-28 03:20:36.892][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-03-28 03:20:36.893][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-03-28 03:20:36.895][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-03-28 03:20:36.897][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-03-28 03:20:36.898][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-28 03:20:36.900][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-28 03:20:36.902][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-03-28 03:20:36.903][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-03-28 03:20:36.905][biodb::testThat]
biodb.INFO [2024-03-28 03:20:36.906][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2024-03-28 03:20:36.907][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:36.909][biodb::testThat]
biodb.DEBUG[2024-03-28 03:20:36.914][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-03-28 03:20:36.918][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:36.920][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:36.922][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2024-03-28 03:20:38.234][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2024-03-28 03:20:40.664][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:40.666][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2024-03-28 03:20:40.671][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2024-03-28 03:20:40.675][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:40.680][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:40.681][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:40.683][private$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[2024-03-28 03:20:41.459][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[2024-03-28 03:20:42.236][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:42.239][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2024-03-28 03:20:42.245][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2024-03-28 03:20:42.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:42.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:42.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:42.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:42.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:42.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:42.261][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[2024-03-28 03:20:42.264][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[2024-03-28 03:20:42.268][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:42.270][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:42.272][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-03-28 03:20:43.052][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-03-28 03:20:43.811][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:43.813][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2024-03-28 03:20:43.818][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2024-03-28 03:20:43.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:43.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:43.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:43.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:43.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:43.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:43.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:43.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:43.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:43.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:43.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:43.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:43.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:43.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:43.877][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:43.881][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:43.883][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-03-28 03:20:43.885][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:43.887][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-03-28 03:20:43.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:43.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:43.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:43.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:43.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:43.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:43.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:43.925][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:43.929][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:43.953][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-03-28 03:20:43.955][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:43.957][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-03-28 03:20:43.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:43.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:43.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:43.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:43.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:43.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:43.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:43.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:43.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:43.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:43.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:43.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:43.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:43.986][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[2024-03-28 03:20:43.991][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:43.995][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:43.997][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-03-28 03:20:43.999][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:44.001][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-03-28 03:20:44.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:44.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:44.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:44.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:44.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:44.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:44.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:44.018][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:44.022][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:44.024][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-03-28 03:20:44.026][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:44.027][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-03-28 03:20:44.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:44.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:44.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:44.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:44.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:44.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:44.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:44.044][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:44.049][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:44.050][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:44.053][private$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[2024-03-28 03:20:44.826][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[2024-03-28 03:20:45.599][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:45.603][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2024-03-28 03:20:45.608][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2024-03-28 03:20:45.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:45.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:45.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:45.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:45.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:45.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:45.623][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.INFO [2024-03-28 03:20:45.632][biodb::testThat]
biodb.INFO [2024-03-28 03:20:45.634][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2024-03-28 03:20:45.635][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:45.636][biodb::testThat]
biodb.DEBUG[2024-03-28 03:20:45.641][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[2024-03-28 03:20:45.646][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:45.647][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:45.650][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-03-28 03:20:46.422][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-03-28 03:20:47.202][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:47.205][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2024-03-28 03:20:47.210][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2024-03-28 03:20:47.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:47.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:47.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:47.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:47.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:47.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:47.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:47.230][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:47.234][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:47.236][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:47.462][private$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[2024-03-28 03:20:48.236][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[2024-03-28 03:20:49.007][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:49.010][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2024-03-28 03:20:49.016][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2024-03-28 03:20:49.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:49.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-03-28 03:20:49.038][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-03-28 03:20:49.040][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-03-28 03:20:49.041][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-03-28 03:20:49.042][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-03-28 03:20:49.043][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.046][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.048][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-03-28 03:20:49.054][biodb::testContext]
biodb.INFO [2024-03-28 03:20:49.056][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-28 03:20:49.057][biodb::testContext] Test context - Test web services
biodb.INFO [2024-03-28 03:20:49.058][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-28 03:20:49.060][biodb::testContext]
biodb.INFO [2024-03-28 03:20:49.062][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.11.0.
biodb.DEBUG[2024-03-28 03:20:49.065][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-03-28 03:20:49.069][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:20:49.071][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-03-28 03:20:49.072][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-03-28 03:20:49.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.077][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-03-28 03:20:49.102][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-03-28 03:20:49.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.107][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-03-28 03:20:49.109][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-03-28 03:20:49.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.114][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-03-28 03:20:49.115][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-03-28 03:20:49.116][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-03-28 03:20:49.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.121][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-03-28 03:20:49.122][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-03-28 03:20:49.124][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-03-28 03:20:49.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.129][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-03-28 03:20:49.130][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-03-28 03:20:49.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.135][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-03-28 03:20:49.136][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-03-28 03:20:49.138][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-03-28 03:20:49.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.142][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-03-28 03:20:49.144][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-03-28 03:20:49.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.149][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-03-28 03:20:49.150][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-03-28 03:20:49.151][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-03-28 03:20:49.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.156][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-03-28 03:20:49.157][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-03-28 03:20:49.159][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-03-28 03:20:49.160][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-03-28 03:20:49.161][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-03-28 03:20:49.163][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-03-28 03:20:49.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.168][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-03-28 03:20:49.169][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-03-28 03:20:49.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.174][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-03-28 03:20:49.176][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-03-28 03:20:49.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.181][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-03-28 03:20:49.182][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-03-28 03:20:49.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.187][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-03-28 03:20:49.188][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-03-28 03:20:49.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.193][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-03-28 03:20:49.195][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-03-28 03:20:49.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.200][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-03-28 03:20:49.201][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-03-28 03:20:49.206][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-03-28 03:20:49.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.211][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-03-28 03:20:49.213][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-03-28 03:20:49.214][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-03-28 03:20:49.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.219][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-03-28 03:20:49.222][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.223][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-03-28 03:20:49.224][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.226][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:49.227][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.228][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.230][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.231][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.233][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-28 03:20:49.234][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:49.247][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.248][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-03-28 03:20:49.250][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:49.251][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.252][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.254][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:20:49.254][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:20:49.254][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:20:49.254][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-28 03:20:49.254][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-28 03:20:49.255][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:49.257][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:49.258][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:49.259][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:49.261][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:49.262][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:49.263][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.265][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.266][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:49.267][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:49.269][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.270][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.272][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-03-28 03:20:49.274][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.276][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-03-28 03:20:49.277][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.279][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:49.280][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.282][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.283][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.285][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.286][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-28 03:20:49.288][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:49.289][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.290][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-03-28 03:20:49.292][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:49.293][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.295][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.296][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:20:49.296][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:20:49.296][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:20:49.296][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-28 03:20:49.296][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-28 03:20:49.298][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:49.299][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:49.300][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:49.302][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:49.303][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:49.304][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:49.306][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.307][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.309][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:49.310][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:49.311][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.313][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.314][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-03-28 03:20:49.317][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.318][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-03-28 03:20:49.320][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.321][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:49.323][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.324][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.325][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.327][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.328][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-28 03:20:49.330][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:49.331][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.332][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-03-28 03:20:49.334][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:49.335][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.337][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.338][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.339][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:49.341][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:49.342][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:49.343][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:49.345][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:49.346][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:49.347][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.349][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.350][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:49.351][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:49.353][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.354][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.356][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-03-28 03:20:49.358][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.360][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-03-28 03:20:49.361][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.362][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:49.364][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.365][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.367][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.368][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.369][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-28 03:20:49.371][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:49.372][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.374][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-03-28 03:20:49.375][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:49.376][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.378][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.379][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.381][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:49.382][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:49.383][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:49.385][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:49.386][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:49.387][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:49.389][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.390][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.391][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:49.393][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:49.394][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.395][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:49.397][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:20:49.398][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.470][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[2024-03-28 03:20:49.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.476][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[2024-03-28 03:20:49.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.482][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[2024-03-28 03:20:49.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.508][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[2024-03-28 03:20:49.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.514][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.DEBUG[2024-03-28 03:20:49.516][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-03-28 03:20:49.518][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-03-28 03:20:49.520][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-03-28 03:20:49.522][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-03-28 03:20:49.524][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-03-28 03:20:49.526][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-03-28 03:20:49.528][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-03-28 03:20:49.529][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-03-28 03:20:49.531][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-03-28 03:20:49.533][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-03-28 03:20:49.535][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-28 03:20:49.537][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-03-28 03:20:49.539][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-03-28 03:20:49.541][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-03-28 03:20:49.543][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-03-28 03:20:49.545][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-03-28 03:20:49.547][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-03-28 03:20:49.549][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-03-28 03:20:49.551][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-03-28 03:20:49.553][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-03-28 03:20:49.555][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-03-28 03:20:49.557][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-03-28 03:20:49.559][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-03-28 03:20:49.561][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-03-28 03:20:49.563][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-03-28 03:20:49.564][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-03-28 03:20:49.566][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-03-28 03:20:49.568][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-03-28 03:20:49.570][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-03-28 03:20:49.572][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-03-28 03:20:49.574][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-03-28 03:20:49.576][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-03-28 03:20:49.578][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-03-28 03:20:49.580][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-03-28 03:20:49.582][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-03-28 03:20:49.584][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-03-28 03:20:49.586][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-03-28 03:20:49.588][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-03-28 03:20:49.589][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-03-28 03:20:49.591][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-03-28 03:20:49.593][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-03-28 03:20:49.595][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-03-28 03:20:49.597][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-03-28 03:20:49.599][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-03-28 03:20:49.601][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-03-28 03:20:49.603][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-03-28 03:20:49.605][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-03-28 03:20:49.607][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-03-28 03:20:49.609][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-03-28 03:20:49.611][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-03-28 03:20:49.613][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-03-28 03:20:49.615][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-03-28 03:20:49.617][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-03-28 03:20:49.619][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-03-28 03:20:49.621][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-03-28 03:20:49.623][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-03-28 03:20:49.625][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-03-28 03:20:49.627][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-03-28 03:20:49.628][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-03-28 03:20:49.630][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-03-28 03:20:49.632][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-03-28 03:20:49.634][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-03-28 03:20:49.636][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-03-28 03:20:49.638][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-03-28 03:20:49.640][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-03-28 03:20:49.642][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-03-28 03:20:49.644][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-03-28 03:20:49.646][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-03-28 03:20:49.647][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-03-28 03:20:49.649][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-03-28 03:20:49.651][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-03-28 03:20:49.653][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-03-28 03:20:49.655][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-03-28 03:20:49.657][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-03-28 03:20:49.659][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-03-28 03:20:49.661][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-03-28 03:20:49.663][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-03-28 03:20:49.665][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-03-28 03:20:49.667][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-03-28 03:20:49.669][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-03-28 03:20:49.671][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-03-28 03:20:49.673][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-03-28 03:20:49.675][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-03-28 03:20:49.677][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-03-28 03:20:49.679][initialize] This is biodb version 1.11.0.
biodb.DEBUG[2024-03-28 03:20:49.681][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:20:49.682][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.684][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.738][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[2024-03-28 03:20:49.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.746][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.DEBUG[2024-03-28 03:20:49.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.772][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.DEBUG[2024-03-28 03:20:49.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.825][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[2024-03-28 03:20:49.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:49.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:49.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:49.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:49.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:49.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:49.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:49.844][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-03-28 03:20:49.846][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-03-28 03:20:49.849][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.850][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.851][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.853][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:49.854][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.856][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.857][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.858][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-03-28 03:20:49.860][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-03-28 03:20:49.861][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:49.863][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.864][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-03-28 03:20:49.865][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:49.867][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-03-28 03:20:49.867][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-03-28 03:20:49.867][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-03-28 03:20:49.867][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-03-28 03:20:49.867][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-03-28 03:20:49.867][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-03-28 03:20:49.867][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-03-28 03:20:49.867][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-03-28 03:20:49.867][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-03-28 03:20:49.867][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-03-28 03:20:49.867][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-03-28 03:20:49.868][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:49.870][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:20:49.870][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:20:49.870][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:20:49.871][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-03-28 03:20:49.873][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:49.874][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:49.875][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:49.877][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:49.878][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:49.879][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:49.881][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:20:49.881][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-03-28 03:20:49.882][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:49.883][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:49.885][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:49.886][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-03-28 03:20:49.886][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-03-28 03:20:49.888][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-03-28 03:20:49.890][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-28 03:20:49.892][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-03-28 03:20:49.895][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-03-28 03:20:49.897][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-03-28 03:20:49.899][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-03-28 03:20:49.904][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-03-28 03:20:49.906][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-03-28 03:20:49.907][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-03-28 03:20:49.909][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-03-28 03:20:49.911][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-28 03:20:49.912][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-28 03:20:49.914][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-03-28 03:20:49.916][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-03-28 03:20:49.918][biodb::testThat]
biodb.INFO [2024-03-28 03:20:49.919][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-03-28 03:20:49.920][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:49.922][biodb::testThat]
biodb.DEBUG[2024-03-28 03:20:49.926][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-03-28 03:20:49.931][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:49.933][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-03-28 03:20:49.934][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:49.936][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-03-28 03:20:49.941][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[2024-03-28 03:20:49.946][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:49.947][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:49.949][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-03-28 03:20:50.706][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-03-28 03:20:51.484][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:51.487][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2024-03-28 03:20:51.492][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2024-03-28 03:20:51.516][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-03-28 03:20:51.518][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-03-28 03:20:51.520][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-03-28 03:20:51.521][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-03-28 03:20:51.523][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:51.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:51.525][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.528][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-03-28 03:20:51.534][biodb::testContext]
biodb.INFO [2024-03-28 03:20:51.536][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-28 03:20:51.538][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-03-28 03:20:51.539][biodb::testContext] ********************************************************************************
biodb.INFO [2024-03-28 03:20:51.540][biodb::testContext]
biodb.INFO [2024-03-28 03:20:51.543][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.11.0.
biodb.DEBUG[2024-03-28 03:20:51.546][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-03-28 03:20:51.551][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:20:51.552][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-03-28 03:20:51.554][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-03-28 03:20:51.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.557][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[2024-03-28 03:20:51.559][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-03-28 03:20:51.560][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-03-28 03:20:51.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.566][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-03-28 03:20:51.567][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-03-28 03:20:51.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.571][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[2024-03-28 03:20:51.572][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-03-28 03:20:51.574][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-03-28 03:20:51.575][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-03-28 03:20:51.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.580][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-03-28 03:20:51.582][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-03-28 03:20:51.583][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-03-28 03:20:51.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.587][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[2024-03-28 03:20:51.588][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-03-28 03:20:51.590][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-03-28 03:20:51.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.595][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-03-28 03:20:51.596][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-03-28 03:20:51.598][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-03-28 03:20:51.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.603][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-03-28 03:20:51.605][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-03-28 03:20:51.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.610][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-03-28 03:20:51.611][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-03-28 03:20:51.613][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-03-28 03:20:51.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.618][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-03-28 03:20:51.619][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-03-28 03:20:51.621][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-03-28 03:20:51.622][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-03-28 03:20:51.623][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-03-28 03:20:51.625][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-03-28 03:20:51.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.630][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-03-28 03:20:51.632][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-03-28 03:20:51.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.637][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-03-28 03:20:51.639][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-03-28 03:20:51.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.644][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-03-28 03:20:51.645][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-03-28 03:20:51.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.650][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-03-28 03:20:51.652][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-03-28 03:20:51.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.657][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-03-28 03:20:51.659][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-03-28 03:20:51.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.662][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[2024-03-28 03:20:51.664][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-03-28 03:20:51.666][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-03-28 03:20:51.671][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-03-28 03:20:51.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.676][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-03-28 03:20:51.678][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-03-28 03:20:51.680][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-03-28 03:20:51.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.685][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-03-28 03:20:51.688][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.690][self$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[2024-03-28 03:20:51.691][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.693][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:51.695][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.696][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.698][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.699][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.701][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-28 03:20:51.703][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:51.704][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.706][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-03-28 03:20:51.707][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:51.709][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.710][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.712][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:20:51.712][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:20:51.712][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:20:51.712][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-28 03:20:51.712][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-28 03:20:51.713][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:51.715][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:51.716][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:51.718][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:51.719][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:51.720][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:51.722][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.723][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.725][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:51.726][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:51.727][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.729][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.731][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-03-28 03:20:51.734][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.735][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-03-28 03:20:51.736][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.738][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:51.739][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.741][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.742][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.744][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.745][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-28 03:20:51.746][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:51.748][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.749][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-03-28 03:20:51.751][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:51.752][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.754][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.755][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:20:51.755][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:20:51.755][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:20:51.755][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-03-28 03:20:51.755][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-03-28 03:20:51.757][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:51.758][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:51.759][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:51.761][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:51.762][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:51.763][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:51.773][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.774][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.776][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:51.777][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:51.778][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.779][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.781][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-03-28 03:20:51.784][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.785][self$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[2024-03-28 03:20:51.786][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.788][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:51.789][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.790][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.792][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.793][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.795][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-03-28 03:20:51.796][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:51.797][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.799][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-03-28 03:20:51.800][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:51.801][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.803][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.804][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.805][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:51.807][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:51.808][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:51.809][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:51.811][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:51.812][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:51.813][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.815][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.816][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:51.817][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:51.818][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.820][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.821][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-03-28 03:20:51.824][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.825][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-03-28 03:20:51.827][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.828][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:51.829][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.831][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.832][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.833][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.835][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-03-28 03:20:51.836][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:51.838][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.839][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-03-28 03:20:51.840][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:51.842][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.844][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:51.845][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.847][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-03-28 03:20:51.848][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:51.849][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:51.850][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:51.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:51.853][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:51.854][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:51.856][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.857][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:51.858][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:51.860][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:51.861][self$setPropertyValue]
biodb.DEBUG[2024-03-28 03:20:51.863][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:20:51.864][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.927][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[2024-03-28 03:20:51.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.933][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[2024-03-28 03:20:51.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.946][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[2024-03-28 03:20:51.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.952][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[2024-03-28 03:20:51.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:51.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:51.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:51.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:51.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:51.973][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-03-28 03:20:51.975][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-03-28 03:20:51.977][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-03-28 03:20:51.979][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-03-28 03:20:51.981][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-03-28 03:20:51.983][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-03-28 03:20:51.985][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-03-28 03:20:51.987][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-03-28 03:20:51.989][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-03-28 03:20:51.991][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-03-28 03:20:51.993][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-28 03:20:51.995][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-03-28 03:20:51.997][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-03-28 03:20:51.999][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-03-28 03:20:52.001][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-03-28 03:20:52.010][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-03-28 03:20:52.012][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-03-28 03:20:52.014][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-03-28 03:20:52.016][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-03-28 03:20:52.019][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-03-28 03:20:52.021][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-03-28 03:20:52.023][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-03-28 03:20:52.025][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-03-28 03:20:52.027][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-03-28 03:20:52.029][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-03-28 03:20:52.031][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-03-28 03:20:52.033][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-03-28 03:20:52.035][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-03-28 03:20:52.037][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-03-28 03:20:52.039][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-03-28 03:20:52.041][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-03-28 03:20:52.043][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-03-28 03:20:52.046][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-03-28 03:20:52.048][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-03-28 03:20:52.050][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-03-28 03:20:52.052][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-03-28 03:20:52.054][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-03-28 03:20:52.056][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-03-28 03:20:52.058][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-03-28 03:20:52.060][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-03-28 03:20:52.061][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-03-28 03:20:52.064][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-03-28 03:20:52.066][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-03-28 03:20:52.068][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-03-28 03:20:52.070][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-03-28 03:20:52.072][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-03-28 03:20:52.073][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-03-28 03:20:52.076][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-03-28 03:20:52.078][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-03-28 03:20:52.080][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-03-28 03:20:52.082][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-03-28 03:20:52.083][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-03-28 03:20:52.085][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-03-28 03:20:52.087][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-03-28 03:20:52.089][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-03-28 03:20:52.091][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-03-28 03:20:52.093][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-03-28 03:20:52.095][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-03-28 03:20:52.097][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-03-28 03:20:52.099][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-03-28 03:20:52.101][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-03-28 03:20:52.103][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-03-28 03:20:52.105][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-03-28 03:20:52.107][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-03-28 03:20:52.108][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-03-28 03:20:52.110][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-03-28 03:20:52.112][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-03-28 03:20:52.114][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-03-28 03:20:52.116][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-03-28 03:20:52.118][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-03-28 03:20:52.120][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-03-28 03:20:52.123][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-03-28 03:20:52.125][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-03-28 03:20:52.127][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-03-28 03:20:52.129][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-03-28 03:20:52.131][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-03-28 03:20:52.133][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-03-28 03:20:52.136][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-03-28 03:20:52.138][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-03-28 03:20:52.140][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-03-28 03:20:52.142][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-03-28 03:20:52.144][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-03-28 03:20:52.146][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-03-28 03:20:52.148][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-03-28 03:20:52.150][initialize] This is biodb version 1.11.0.
biodb.DEBUG[2024-03-28 03:20:52.151][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-03-28 03:20:52.153][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.155][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.220][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[2024-03-28 03:20:52.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.229][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[2024-03-28 03:20:52.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.277][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[2024-03-28 03:20:52.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.306][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[2024-03-28 03:20:52.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.315][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[2024-03-28 03:20:52.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-03-28 03:20:52.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.326][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-03-28 03:20:52.328][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-03-28 03:20:52.331][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:52.333][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-03-28 03:20:52.334][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:52.336][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-03-28 03:20:52.338][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:52.339][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-03-28 03:20:52.341][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:52.343][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-03-28 03:20:52.345][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-03-28 03:20:52.347][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-03-28 03:20:52.348][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:52.350][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-03-28 03:20:52.351][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-03-28 03:20:52.353][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-03-28 03:20:52.353][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-03-28 03:20:52.353][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-03-28 03:20:52.353][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-03-28 03:20:52.353][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-03-28 03:20:52.353][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-03-28 03:20:52.353][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-03-28 03:20:52.353][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-03-28 03:20:52.353][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-03-28 03:20:52.353][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-03-28 03:20:52.353][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-03-28 03:20:52.354][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-03-28 03:20:52.356][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-03-28 03:20:52.356][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-03-28 03:20:52.356][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-03-28 03:20:52.358][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-03-28 03:20:52.359][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:52.361][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:52.362][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-03-28 03:20:52.364][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-03-28 03:20:52.365][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-03-28 03:20:52.366][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-03-28 03:20:52.368][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:20:52.368][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-03-28 03:20:52.369][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-03-28 03:20:52.370][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-03-28 03:20:52.372][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-03-28 03:20:52.373][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-03-28 03:20:52.373][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-03-28 03:20:52.375][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-03-28 03:20:52.377][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-03-28 03:20:52.379][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-03-28 03:20:52.382][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-03-28 03:20:52.384][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-03-28 03:20:52.386][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-03-28 03:20:52.390][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-03-28 03:20:52.392][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-03-28 03:20:52.394][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-03-28 03:20:52.396][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-03-28 03:20:52.397][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-28 03:20:52.399][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-03-28 03:20:52.400][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-03-28 03:20:52.402][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-03-28 03:20:52.404][biodb::testThat]
biodb.INFO [2024-03-28 03:20:52.405][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-03-28 03:20:52.406][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-03-28 03:20:52.408][biodb::testThat]
biodb.DEBUG[2024-03-28 03:20:52.412][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-03-28 03:20:52.416][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:52.418][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-03-28 03:20:52.420][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:52.422][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-03-28 03:20:52.426][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-03-28 03:20:52.430][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-03-28 03:20:52.453][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-03-28 03:20:52.455][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-03-28 03:20:52.457][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-03-28 03:20:52.463][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-03-28 03:20:52.464][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-03-28 03:20:52.467][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-03-28 03:20:52.468][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-03-28 03:20:52.470][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-03-28 03:20:52.471][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-03-28 03:20:52.473][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-03-28 03:20:52.474][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-03-28 03:20:52.475][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-03-28 03:20:52.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:52.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:52.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:52.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:52.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:52.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:52.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-03-28 03:20:52.493][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2024-03-28 03:20:52.505][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-03-28 03:20:52.506][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-03-28 03:20:52.508][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2024-03-28 03:20:53.277][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2024-03-28 03:20:55.598][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-03-28 03:20:55.601][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2024-03-28 03:20:55.606][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2024-03-28 03:20:55.609][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2024-03-28 03:20:55.611][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-03-28 03:20:55.613][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-03-28 03:20:55.614][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-03-28 03:20:55.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-03-28 03:20:55.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:55.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:55.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:55.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:55.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:55.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-03-28 03:20:55.634][ef$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:55.636][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:55.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.639][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:55.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:55.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.646][ef$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:55.648][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:55.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.651][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.653][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-03-28 03:20:55.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-03-28 03:20:55.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.663][ef$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:55.665][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:55.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.668][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.671][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-03-28 03:20:55.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-03-28 03:20:55.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.677][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-03-28 03:20:55.679][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-03-28 03:20:55.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.681][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.684][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-03-28 03:20:55.686][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-03-28 03:20:55.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.688][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.691][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:55.692][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:55.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.695][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.697][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:55.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-03-28 03:20:55.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.704][ef$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:55.705][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:55.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.708][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.711][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-03-28 03:20:55.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-03-28 03:20:55.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.717][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:55.718][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:55.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.721][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:55.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-03-28 03:20:55.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.729][ef$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:55.731][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:55.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.734][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.737][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-03-28 03:20:55.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-03-28 03:20:55.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.743][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:55.744][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:55.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.747][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.749][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-03-28 03:20:55.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-03-28 03:20:55.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.755][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:55.757][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:55.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.760][ef$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.762][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-03-28 03:20:55.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-03-28 03:20:55.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:55.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:55.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:55.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:55.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:55.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:55.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-03-28 03:20:55.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-03-28 03:20:55.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:55.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:55.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:55.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:55.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:55.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:55.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:55.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:55.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:55.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:55.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-03-28 03:20:55.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-03-28 03:20:55.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-03-28 03:20:55.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-03-28 03:20:55.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-03-28 03:20:55.828][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-03-28 03:20:55.833][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-03-28 03:20:55.840][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-03-28 03:20:55.842][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-03-28 03:20:55.843][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-03-28 03:20:55.844][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-03-28 03:20:55.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-03-28 03:20:55.847][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-03-28 03:20:55.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-03-28 03:20:55.849][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-03-28 03:20:55.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 373 ]
>
> proc.time()
user system elapsed
23.556 0.796 99.350
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 1.156 | 0.069 | 4.619 | |
| ChebiEntry | 0.208 | 0.000 | 0.207 | |