Back to Long Tests report for BioC 3.22

This page was generated on 2026-01-17 23:55 -0500 (Sat, 17 Jan 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4886
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4676
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 5/31HostnameOS / ArchCHECK
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2026-01-17 09:55 -0500 (Sat, 17 Jan 2026)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  
merida1macOS 12.7.6 Monterey / x86_64  ERROR  

CHECK results for biodbChebi on merida1

To the developers/maintainers of the biodbChebi package:
- 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.

raw results


Summary

Package: biodbChebi
Version: 1.16.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
StartedAt: 2026-01-17 16:01:42 -0500 (Sat, 17 Jan 2026)
EndedAt: 2026-01-17 16:03:02 -0500 (Sat, 17 Jan 2026)
EllapsedTime: 79.5 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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> # 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 [2026-01-17 16:02:29.172][biodb::testContext]
biodb.INFO [2026-01-17 16:02:29.176][biodb::testContext] ********************************************************************************
biodb.INFO [2026-01-17 16:02:29.177][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-01-17 16:02:29.179][biodb::testContext] ********************************************************************************
biodb.INFO [2026-01-17 16:02:29.180][biodb::testContext]
biodb.INFO [2026-01-17 16:02:29.187][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2026-01-17 16:02:29.190][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2026-01-17 16:02:29.199][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-17 16:02:29.200][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-01-17 16:02:29.202][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-01-17 16:02:29.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.206][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-01-17 16:02:29.231][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-01-17 16:02:29.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.234][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[2026-01-17 16:02:29.236][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-01-17 16:02:29.237][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-01-17 16:02:29.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.241][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-01-17 16:02:29.243][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-01-17 16:02:29.244][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-01-17 16:02:29.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.249][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-01-17 16:02:29.250][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-01-17 16:02:29.251][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-01-17 16:02:29.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.256][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-01-17 16:02:29.257][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-01-17 16:02:29.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.261][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[2026-01-17 16:02:29.262][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-01-17 16:02:29.263][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-01-17 16:02:29.265][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-01-17 16:02:29.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.270][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-01-17 16:02:29.271][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-01-17 16:02:29.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.276][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-01-17 16:02:29.278][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-01-17 16:02:29.279][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-01-17 16:02:29.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.284][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-01-17 16:02:29.285][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-01-17 16:02:29.287][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-01-17 16:02:29.288][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-01-17 16:02:29.290][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-01-17 16:02:29.291][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-01-17 16:02:29.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.296][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-01-17 16:02:29.297][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-01-17 16:02:29.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.302][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-01-17 16:02:29.304][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-01-17 16:02:29.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.308][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-01-17 16:02:29.310][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-01-17 16:02:29.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.320][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-01-17 16:02:29.322][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-01-17 16:02:29.323][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-01-17 16:02:29.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.328][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-01-17 16:02:29.329][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-01-17 16:02:29.340][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-01-17 16:02:29.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.345][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-01-17 16:02:29.346][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-01-17 16:02:29.348][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-01-17 16:02:29.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.355][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-01-17 16:02:29.399][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.421][self$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[2026-01-17 16:02:29.422][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.423][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-17 16:02:29.425][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.426][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.427][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.428][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.430][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-01-17 16:02:29.431][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-17 16:02:29.432][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.433][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-01-17 16:02:29.435][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-17 16:02:29.436][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.437][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.438][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-17 16:02:29.438][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-17 16:02:29.438][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-17 16:02:29.438][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-01-17 16:02:29.438][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-01-17 16:02:29.440][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-17 16:02:29.441][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:02:29.442][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:02:29.443][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-17 16:02:29.444][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:02:29.446][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:02:29.447][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.448][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.449][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-17 16:02:29.450][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-17 16:02:29.451][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.453][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.454][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-01-17 16:02:29.457][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.458][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-01-17 16:02:29.459][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.461][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-17 16:02:29.462][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.464][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.465][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.466][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.468][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-01-17 16:02:29.469][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-17 16:02:29.470][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.471][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-01-17 16:02:29.473][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-17 16:02:29.474][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.475][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.476][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-17 16:02:29.476][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-17 16:02:29.476][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-17 16:02:29.476][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-01-17 16:02:29.476][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-01-17 16:02:29.478][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-17 16:02:29.479][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:02:29.480][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:02:29.481][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-17 16:02:29.483][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:02:29.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:02:29.485][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.486][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.488][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-17 16:02:29.489][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-17 16:02:29.490][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.491][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.493][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-01-17 16:02:29.495][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.496][self$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[2026-01-17 16:02:29.498][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.499][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-17 16:02:29.500][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.501][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.503][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.504][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.505][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-01-17 16:02:29.506][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-17 16:02:29.508][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.509][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-01-17 16:02:29.510][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-17 16:02:29.511][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.513][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.514][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.515][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-17 16:02:29.516][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:02:29.517][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:02:29.519][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-17 16:02:29.520][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:02:29.521][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:02:29.522][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.523][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.524][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-17 16:02:29.526][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-17 16:02:29.527][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.528][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.529][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-01-17 16:02:29.531][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.533][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-01-17 16:02:29.534][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.535][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-17 16:02:29.536][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.538][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.539][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.540][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.541][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-01-17 16:02:29.543][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-17 16:02:29.544][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.545][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-01-17 16:02:29.546][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-17 16:02:29.548][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.549][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.550][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.551][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-17 16:02:29.553][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:02:29.554][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:02:29.555][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-17 16:02:29.556][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:02:29.557][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:02:29.558][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.560][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.561][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-17 16:02:29.562][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-17 16:02:29.563][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.569][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-17 16:02:29.572][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-17 16:02:29.574][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.602][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[2026-01-17 16:02:29.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.623][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.DEBUG[2026-01-17 16:02:29.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.629][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[2026-01-17 16:02:29.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.646][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[2026-01-17 16:02:29.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.657][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.DEBUG[2026-01-17 16:02:29.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.662][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[2026-01-17 16:02:29.663][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-01-17 16:02:29.668][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-01-17 16:02:29.670][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-01-17 16:02:29.671][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-01-17 16:02:29.673][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-01-17 16:02:29.675][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-01-17 16:02:29.676][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-01-17 16:02:29.678][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-01-17 16:02:29.680][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-01-17 16:02:29.681][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-01-17 16:02:29.683][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-01-17 16:02:29.685][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-01-17 16:02:29.687][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-01-17 16:02:29.688][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-01-17 16:02:29.690][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-01-17 16:02:29.692][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-01-17 16:02:29.693][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-01-17 16:02:29.695][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-01-17 16:02:29.697][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-01-17 16:02:29.698][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-01-17 16:02:29.700][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-01-17 16:02:29.702][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-01-17 16:02:29.703][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-01-17 16:02:29.705][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-01-17 16:02:29.707][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-01-17 16:02:29.709][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-01-17 16:02:29.710][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-01-17 16:02:29.712][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-01-17 16:02:29.714][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-01-17 16:02:29.715][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-01-17 16:02:29.717][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-01-17 16:02:29.719][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-01-17 16:02:29.720][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-01-17 16:02:29.722][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-01-17 16:02:29.724][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-01-17 16:02:29.726][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-01-17 16:02:29.727][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-01-17 16:02:29.729][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-01-17 16:02:29.731][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-01-17 16:02:29.733][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-01-17 16:02:29.734][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-01-17 16:02:29.736][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-01-17 16:02:29.738][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-01-17 16:02:29.740][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-01-17 16:02:29.741][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-01-17 16:02:29.743][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-01-17 16:02:29.745][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-01-17 16:02:29.746][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-01-17 16:02:29.748][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-01-17 16:02:29.750][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-01-17 16:02:29.752][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-01-17 16:02:29.753][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-01-17 16:02:29.755][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-01-17 16:02:29.757][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-01-17 16:02:29.758][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-01-17 16:02:29.760][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-01-17 16:02:29.762][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-01-17 16:02:29.763][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-01-17 16:02:29.765][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-01-17 16:02:29.767][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-01-17 16:02:29.768][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-01-17 16:02:29.770][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-01-17 16:02:29.772][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-01-17 16:02:29.773][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-01-17 16:02:29.775][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-01-17 16:02:29.777][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-01-17 16:02:29.779][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-01-17 16:02:29.780][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-01-17 16:02:29.782][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-01-17 16:02:29.784][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-01-17 16:02:29.785][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-01-17 16:02:29.787][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-01-17 16:02:29.789][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-01-17 16:02:29.790][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-01-17 16:02:29.796][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-01-17 16:02:29.798][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-01-17 16:02:29.800][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-01-17 16:02:29.802][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-01-17 16:02:29.803][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-01-17 16:02:29.805][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-01-17 16:02:29.806][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-01-17 16:02:29.808][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-01-17 16:02:29.810][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-01-17 16:02:29.817][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-01-17 16:02:29.819][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2026-01-17 16:02:29.822][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-17 16:02:29.823][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.826][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.869][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[2026-01-17 16:02:29.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.915][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[2026-01-17 16:02:29.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.939][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[2026-01-17 16:02:29.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.946][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[2026-01-17 16:02:29.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:02:29.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:29.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:29.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:29.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:29.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:29.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:02:29.957][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-01-17 16:02:29.969][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-01-17 16:02:29.971][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.973][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.974][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.975][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-17 16:02:29.976][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.978][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-17 16:02:29.979][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.980][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-01-17 16:02:29.981][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-01-17 16:02:29.982][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-17 16:02:29.984][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:29.985][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-01-17 16:02:29.986][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-17 16:02:29.988][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-01-17 16:02:29.988][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-01-17 16:02:29.988][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-01-17 16:02:29.988][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-01-17 16:02:29.988][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-01-17 16:02:29.988][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-01-17 16:02:29.988][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-01-17 16:02:29.988][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-01-17 16:02:29.988][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-01-17 16:02:29.988][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-01-17 16:02:29.988][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-01-17 16:02:29.989][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-01-17 16:02:29.990][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-17 16:02:29.990][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-17 16:02:29.990][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-17 16:02:29.992][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-01-17 16:02:29.993][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:02:29.994][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:02:29.995][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-17 16:02:29.996][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:02:29.997][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:02:29.999][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-17 16:02:30.000][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-01-17 16:02:30.000][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-01-17 16:02:30.001][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-17 16:02:30.002][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-17 16:02:30.003][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-01-17 16:02:30.005][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-01-17 16:02:30.005][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-01-17 16:02:30.013][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-01-17 16:02:30.019][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-01-17 16:02:30.021][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-01-17 16:02:30.022][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-01-17 16:02:30.024][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-01-17 16:02:30.026][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-01-17 16:02:30.049][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-01-17 16:02:30.066][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-01-17 16:02:30.076][biodb::testThat]
biodb.INFO [2026-01-17 16:02:30.078][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-01-17 16:02:30.079][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:30.080][biodb::testThat]
biodb.TRACE[2026-01-17 16:02:30.084][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-01-17 16:02:30.086][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-17 16:02:30.090][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-17 16:02:30.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:30.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:30.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:30.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:30.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:30.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:30.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:02:30.132][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.134][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.135][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.136][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.159][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:30.161][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:30.162][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.163][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.200][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:30.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:30.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.206][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:30.207][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:30.209][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.210][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.211][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:30.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:30.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.217][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:30.218][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:30.219][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.221][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:30.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:30.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:30.229][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:30.230][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.231][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:30.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:30.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.238][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.239][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.241][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.242][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.243][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.248][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:02:30.250][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.251][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.252][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.254][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:02:30.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.259][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.260][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.261][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.272][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.279][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:30.280][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:30.281][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.282][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.284][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:30.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:30.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.289][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:02:30.291][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.292][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.293][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.295][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:02:30.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.300][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:30.301][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:30.302][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.304][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.305][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:30.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:30.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:02:30.406][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-01-17 16:02:30.409][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:30.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:30.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:30.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:30.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:30.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:30.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.492][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:30.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:30.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.507][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:02:30.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:02:30.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.512][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:02:30.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:02:30.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.517][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-17 16:02:30.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-17 16:02:30.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.522][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-17 16:02:30.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-17 16:02:30.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.638][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.639][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.640][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.641][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:30.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:30.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.675][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.676][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.678][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.679][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:30.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.702][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:30.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:30.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.707][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:30.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:30.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:30.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:30.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.717][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:30.719][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:30.720][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.721][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.722][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:30.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:30.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.739][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:30.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:30.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.744][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:30.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:30.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.749][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:30.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:30.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.754][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:30.756][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:30.757][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.758][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.759][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:30.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:30.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.791][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.792][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.793][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.795][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:30.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.827][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.828][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.830][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.831][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:30.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.848][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:30.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:30.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.853][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:30.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:30.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.858][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:30.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:30.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.864][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:30.865][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:30.866][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.867][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.869][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:30.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:30.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.889][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.894][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.899][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.904][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.906][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.907][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.908][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.909][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:30.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.925][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.930][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.935][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.940][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.941][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.942][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.944][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.945][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:30.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.960][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:30.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:30.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.966][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:30.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:30.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.971][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:30.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:30.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.976][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:30.978][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:30.979][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.981][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.982][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:30.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:30.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:30.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:30.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.015][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.017][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.018][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.019][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.038][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:31.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:31.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:31.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:31.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:31.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:31.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.054][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:31.055][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:31.056][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.057][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:31.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:31.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.074][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.075][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.077][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.078][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.084][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:31.090][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:31.091][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.092][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.099][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:31.100][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:31.102][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.103][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.109][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:31.111][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:31.112][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.113][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.122][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.124][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.130][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.132][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.133][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.134][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.141][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.142][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.143][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.145][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.151][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.153][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.154][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.155][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.162][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.163][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.164][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.166][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.172][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:31.174][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:31.175][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.176][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.183][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:31.184][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:31.186][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.187][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.210][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-01-17 16:02:31.257][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-17 16:02:31.258][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-17 16:02:31.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:31.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:31.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:31.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:31.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:31.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:31.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:02:31.275][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.281][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.282][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.283][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.312][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:31.313][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:31.314][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.316][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.317][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:31.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:31.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.322][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:31.324][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:31.325][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.326][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.328][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:31.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:31.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.333][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:31.334][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:31.335][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.337][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:31.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:31.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.343][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.345][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.346][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.347][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.354][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.355][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.356][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.358][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.359][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.364][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:02:31.366][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.367][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.368][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.370][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:02:31.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.375][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.376][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.377][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.379][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.385][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:31.387][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:31.388][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.389][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.391][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:31.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:31.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.396][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:02:31.397][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.398][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.400][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.401][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:02:31.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.406][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:31.408][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:31.409][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.410][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.412][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:31.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:31.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:02:31.473][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-01-17 16:02:31.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:31.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:31.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:31.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:31.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:31.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.530][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:02:31.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:02:31.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.535][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:02:31.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:02:31.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.540][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-17 16:02:31.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-17 16:02:31.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.545][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-17 16:02:31.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-17 16:02:31.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.661][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.663][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.664][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.665][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:31.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:31.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.698][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.699][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.700][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.701][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:31.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.718][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:31.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:31.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:31.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:31.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.729][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:31.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:31.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.734][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:31.735][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:31.737][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.738][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:31.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:31.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.756][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:31.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:31.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.761][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:31.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:31.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.766][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:31.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:31.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.771][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:31.772][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:31.774][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.775][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.776][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:31.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:31.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.793][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:02:31.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.808][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:02:31.810][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.811][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.812][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.814][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:02:31.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.846][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.847][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.848][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.850][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:31.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.887][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.888][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.889][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.890][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:31.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.907][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:31.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:31.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.912][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:31.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:31.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.917][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:31.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:31.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.922][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:31.924][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:31.925][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.926][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.927][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:31.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:31.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.943][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.948][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.953][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.958][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.960][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.961][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.962][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.963][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:31.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.979][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.984][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.989][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:31.995][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.996][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:31.997][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:31.998][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.000][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.016][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.022][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.027][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.032][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.033][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.035][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.036][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.037][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.064][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.074][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.075][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.077][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.078][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.109][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.111][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.112][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.113][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.130][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.131][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.133][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.134][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.140][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:32.142][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:32.143][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.144][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.151][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:32.152][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:32.153][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.155][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.161][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.162][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.164][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.165][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.171][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.173][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.174][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.175][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.182][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.183][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.184][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.186][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.192][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.194][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.195][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.196][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.202][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.204][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.205][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.206][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.212][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.214][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.215][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.216][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.223][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:32.224][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:32.225][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.226][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.233][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.234][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.235][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.236][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.243][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-01-17 16:02:32.245][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-17 16:02:32.246][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-17 16:02:32.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:32.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:32.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:32.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:32.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:32.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:32.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:02:32.268][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.270][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.271][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.272][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.279][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:32.280][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:32.282][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.283][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.284][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:32.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:32.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.289][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:32.291][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:32.292][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.293][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.295][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:32.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:32.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.300][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.301][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.302][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.303][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.310][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.311][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.313][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.314][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.321][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.323][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.324][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.326][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.327][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.332][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:02:32.334][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.335][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.336][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.338][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:02:32.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.343][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.344][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.346][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.347][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.354][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:32.355][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:32.356][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.357][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:32.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:32.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.364][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:02:32.366][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.367][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.368][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.370][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:02:32.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.375][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.377][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.378][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.380][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.382][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:02:32.438][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-01-17 16:02:32.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.475][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:02:32.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:02:32.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.480][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:02:32.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:02:32.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.485][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-17 16:02:32.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-17 16:02:32.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.490][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-17 16:02:32.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-17 16:02:32.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:32.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.588][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.590][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.591][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.592][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.608][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.613][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.618][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.623][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.624][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.626][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.627][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.628][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:32.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:32.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.653][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.658][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.663][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.664][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.666][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.667][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:32.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:32.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.693][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.698][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.700][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.701][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.702][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.703][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:32.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.719][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.726][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.731][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.736][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.737][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.739][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.740][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.741][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:32.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.771][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.773][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.774][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.775][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:32.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.808][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.809][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.811][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.812][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:32.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.828][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:32.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:32.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.833][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:32.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:32.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.838][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:32.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:32.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.848][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:32.849][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:32.850][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.851][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.853][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:32.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:32.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.868][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.873][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.878][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.883][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.884][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.885][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.886][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.888][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:32.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.903][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:32.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:32.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:32.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:32.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.913][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:32.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:32.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.918][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:32.920][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:32.921][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.922][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.923][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:32.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:32.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.939][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:32.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:32.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.944][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:32.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:32.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.949][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:32.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:32.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.954][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:32.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:32.957][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.958][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.959][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:32.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:32.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.974][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:32.976][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:32.977][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.978][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.985][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:02:32.986][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:02:32.987][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.989][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:32.995][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:02:32.996][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:02:32.998][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:32.999][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:33.005][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:02:33.006][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:02:33.008][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:33.009][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:33.015][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:02:33.016][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:02:33.017][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:33.019][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:33.025][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:33.026][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:02:33.027][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:33.029][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:33.035][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:33.036][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:02:33.038][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:33.043][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:33.049][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:33.051][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:33.052][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:33.053][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:33.059][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:02:33.061][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:02:33.062][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:33.063][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:33.069][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:33.071][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:33.072][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:33.073][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:33.079][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:02:33.081][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:02:33.082][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:33.083][ef$get] fields variable is a list.
biodb.INFO [2026-01-17 16:02:33.093][biodb::testThat]
biodb.INFO [2026-01-17 16:02:33.095][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-01-17 16:02:33.096][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:33.097][biodb::testThat]
biodb.DEBUG[2026-01-17 16:02:33.100][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-01-17 16:02:33.166][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-01-17 16:02:33.170][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-01-17 16:02:33.172][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-01-17 16:02:33.173][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-01-17 16:02:33.175][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-01-17 16:02:33.176][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-01-17 16:02:33.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:33.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:33.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:33.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:33.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:33.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:33.195][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".
sched.DEBUG[2026-01-17 16:02:33.198][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-01-17 16:02:33.225][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-01-17 16:02:33.226][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:33.227][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:33.229][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:33.614][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:33.616][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:33.617][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:33.618][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:34.012][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:34.013][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:34.015][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:34.017][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:34.393][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:34.394][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:34.395][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:34.396][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:34.784][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:34.785][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:34.786][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:34.788][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:35.162][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:35.163][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:35.164][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:35.166][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:35.552][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:35.554][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:35.555][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:35.556][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:35.933][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:35.934][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:35.935][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:35.937][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:36.322][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:36.324][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:36.325][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:36.326][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:36.701][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:36.702][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:36.703][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:36.705][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:37.091][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:37.093][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:37.094][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:37.095][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:37.471][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:37.472][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:37.473][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:37.479][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:37.875][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:37.877][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:37.878][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:37.880][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:38.260][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:38.261][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:38.263][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:38.264][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:38.652][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:38.653][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:38.654][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:38.656][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:39.031][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:39.033][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:39.034][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:39.035][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:39.654][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:39.655][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:39.657][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:39.659][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:40.034][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:40.036][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:40.037][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:40.038][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:40.425][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:40.426][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:40.427][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:40.429][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:40.804][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:40.805][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:40.807][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:40.808][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:41.195][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-01-17 16:02:41.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:41.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:41.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:41.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:41.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:41.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:41.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-17 16:02:41.234][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-01-17 16:02:41.275][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-01-17 16:02:41.297][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:41.298][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:41.300][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:41.674][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:41.676][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:41.677][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:41.678][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:42.063][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:42.064][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:42.066][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:42.067][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:42.443][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:42.456][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:42.457][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:42.459][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:42.844][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:42.846][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:42.847][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:42.848][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:43.222][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:43.223][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:43.225][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:43.226][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:43.613][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:43.614][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:43.616][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:43.617][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:43.991][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:43.992][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:43.994][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:43.995][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:44.381][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:44.383][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:44.384][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:44.386][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:44.761][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:44.762][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:44.763][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:44.765][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:45.153][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:45.154][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:45.155][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:45.157][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:45.531][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:45.532][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:45.533][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:45.534][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:45.962][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:45.965][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:45.967][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:45.970][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:46.349][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:46.351][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:46.352][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:46.353][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:46.740][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:46.741][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:46.742][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:46.744][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:47.122][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:47.123][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:47.125][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:47.126][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:47.513][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:47.515][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:47.516][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:47.518][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:47.892][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:47.893][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:47.894][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:47.896][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:48.283][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:48.285][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:48.286][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:48.288][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:48.664][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:48.666][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:48.667][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:48.668][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:49.057][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-01-17 16:02:49.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:49.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:49.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:49.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:49.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:49.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:49.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-17 16:02:49.072][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-01-17 16:02:49.074][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-01-17 16:02:49.076][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:49.077][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:49.078][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:49.454][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:49.455][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:49.456][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:49.458][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:50.087][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:50.089][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:50.090][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:50.092][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:50.468][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:50.469][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:50.470][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:50.472][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:50.858][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:50.859][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:50.860][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:50.862][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:51.236][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:51.238][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:51.239][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:51.240][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:51.733][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:51.735][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:51.736][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:51.738][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:52.115][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:52.117][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:52.118][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:52.119][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:52.505][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:52.506][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:52.507][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:52.509][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:52.884][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:52.885][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:52.886][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:52.889][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:53.276][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:53.277][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:53.279][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:53.281][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:53.655][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:53.657][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:53.659][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:53.660][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:54.543][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:54.544][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:54.569][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:54.572][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:54.947][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:54.949][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:54.950][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:54.951][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:55.342][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:55.344][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:55.345][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:55.347][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:55.725][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:55.726][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:55.727][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:55.729][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:56.116][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:56.117][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:56.118][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:56.120][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:56.494][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:56.495][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:56.496][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:56.497][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:56.885][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:56.886][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:56.887][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:56.889][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:57.264][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:57.265][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:57.266][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:57.268][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:57.654][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-01-17 16:02:57.657][cch$saveContents] Save 3 contents to /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-01-17 16:02:57.658][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-01-17 16:02:57.659][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-01-17 16:02:57.661][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-01-17 16:02:57.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:57.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:57.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:57.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:57.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:57.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:57.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:02:57.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:02:57.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:57.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:57.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:57.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:57.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:57.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:57.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:02:57.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:02:57.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:57.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:57.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:57.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:57.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:57.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:57.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:02:57.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:57.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:57.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:57.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:57.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:57.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:02:57.831][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-01-17 16:02:57.833][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:58.010][biodb::testThat]
biodb.INFO [2026-01-17 16:02:58.011][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-01-17 16:02:58.012][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:58.013][biodb::testThat]
biodb.TRACE[2026-01-17 16:02:58.017][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:58.019][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:58.020][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:58.021][ef$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:02:58.023][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:58.366][biodb::testThat]
biodb.INFO [2026-01-17 16:02:58.367][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-01-17 16:02:58.368][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:58.370][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:58.525][biodb::testThat]
biodb.INFO [2026-01-17 16:02:58.527][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-01-17 16:02:58.528][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:58.534][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:58.672][biodb::testThat]
biodb.INFO [2026-01-17 16:02:58.673][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-01-17 16:02:58.674][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:58.675][biodb::testThat]
biodb.INFO [2026-01-17 16:02:58.688][biodb::testThat]
biodb.INFO [2026-01-17 16:02:58.689][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-01-17 16:02:58.690][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:58.691][biodb::testThat]
biodb.INFO [2026-01-17 16:02:58.702][biodb::testThat]
biodb.INFO [2026-01-17 16:02:58.703][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-01-17 16:02:58.704][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:58.705][biodb::testThat]
biodb.DEBUG[2026-01-17 16:02:58.711][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-01-17 16:02:59.272][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-01-17 16:02:59.664][biodb::testThat]
biodb.INFO [2026-01-17 16:02:59.666][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-01-17 16:02:59.667][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:59.668][biodb::testThat]
biodb.TRACE[2026-01-17 16:02:59.838][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:59.839][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:59.841][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:59.842][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:59.843][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:59.844][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:59.845][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:59.847][ef$get] fields variable is a list.
biodb.INFO [2026-01-17 16:02:59.849][biodb::testThat]
biodb.INFO [2026-01-17 16:02:59.850][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-01-17 16:02:59.851][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:59.852][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:59.987][biodb::testThat]
biodb.INFO [2026-01-17 16:02:59.988][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-01-17 16:02:59.990][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:59.991][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:03:00.063][biodb::testThat]
biodb.INFO [2026-01-17 16:03:00.065][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-01-17 16:03:00.066][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:03:00.068][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:03:00.141][biodb::testThat]
biodb.INFO [2026-01-17 16:03:00.143][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-01-17 16:03:00.144][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:03:00.146][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-01-17 16:03:00.219][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:03:00.220][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:03:00.221][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:03:00.223][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:03:00.224][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:03:00.225][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:03:00.227][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:03:00.228][ef$get] fields variable is a list.
biodb.INFO [2026-01-17 16:03:00.231][biodb::testThat]
biodb.INFO [2026-01-17 16:03:00.232][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-01-17 16:03:00.234][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:03:00.235][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:03:00.310][biodb::testThat]
biodb.INFO [2026-01-17 16:03:00.311][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-01-17 16:03:00.313][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:03:00.314][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:03:00.380][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-01-17 16:03:00.382][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-01-17 16:03:00.383][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-01-17 16:03:00.384][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:03:00.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:03:00.386][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:03:00.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:03:00.389][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:03:00.390][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".
[ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• empty test (1):

══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_long_100_generic.R:17:1'): RT unit is defined when there is an RT value. ──
Error in `eval_bare(expr, quo_get_env(quo))`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(...)
 4.     └─testthat::quasi_label(enquo(object), label)
 5.       └─rlang::eval_bare(expr, quo_get_env(quo))
── Failure ('test_long_100_generic.R:17:1'): We can search for an entry by searchable field ──
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for an entry by searchable field ──
Error in `entry$getFieldValue(f)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
── Failure ('test_long_100_generic.R:17:1'): We can search for an entry by name. ──
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for an entry by name. ──
Error in `entry$getFieldValue("name")`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
── Failure ('test_long_100_generic.R:17:1'): We can load an entry from the database. ──
Expected `any(vapply(entries, is.null, FUN.VALUE = TRUE))` to be FALSE.
Differences:
`actual`:   TRUE 
`expected`: FALSE

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─opt$refEntries$getRealEntry(id)
 4.     └─self$getRealEntries(ids = id)
 5.       └─testthat::expect_false(any(vapply(entries, is.null, FUN.VALUE = TRUE)))
── Failure ('test_long_100_generic.R:17:1'): We can load an entry from the database. ──
Expected `e` to inherit from "character".
Actual inheritance: "NULL"
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_is(e, "BiodbEntry")
── Failure ('test_long_100_generic.R:17:1'): We can search for a compound ──────
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(db = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for a compound ────────
Error in `entry$getFieldValue("name")`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(db = `<ChebiCnn>`, opt = `<named list>`)
── Error ('test_long_100_generic.R:17:1'): annotateMzValues() accepts a single vector. ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): ppm tolerance works in annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): Input data frame is not modified by annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): annotateMzValues() works correctly with real values. ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): Additional fields are accepted in annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)

[ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]
Error:
! Test failures.
Execution halted

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck’
* using R version 4.5.2 (2025-10-31)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.16.0’
* 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 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 ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘longtests/testthat.R’ failed.
Last 13 lines of output:
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  ── Error ('test_long_100_generic.R:17:1'): Additional fields are accepted in annotateMzValues() ──
  Error in `e$hasField(mf)`: attempt to apply non-function
  Backtrace:
      ▆
   1. ├─base::do.call(fct, params)
   2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  
  [ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]
  Error:
  ! Test failures.
  Execution halted
* DONE

Status: 1 ERROR
See
  ‘/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/00check.log’
for details.

Installation output

biodbChebi.Rcheck/00install.out

* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.16.0’
** 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)