Package: biodb
Title: Biodb, a Library and a Development Framework for Connecting to
        Chemical and Biological Databases
Version: 1.17.1
Authors@R: c(person("Pierrick", "Roger", email="pierrick.roger@cea.fr", role=c("aut", "cre"), comment=c(ORCID="0000-0001-8177-4873")),
             person("Alexis", "Delabrière", email="delabriere@imsb.biol.ethz.ch", role="ctb", comment=c(ORCID="0000-0003-3308-4549")))
Description: The biodb package provides access to standard remote chemical and
    biological databases (ChEBI, KEGG, HMDB, ...), as well as to in-house local
    database files (CSV, SQLite), with easy retrieval of entries, access to web
    services, search of compounds by mass and/or name, and mass spectra matching
    for LCMS and MSMS. Its architecture as a development framework facilitates
    the development of new database connectors for local projects or inside
    separate published packages.
URL: https://gitlab.com/rbiodb/biodb
BugReports: https://gitlab.com/rbiodb/biodb/-/issues
biocViews: Software, Infrastructure, DataImport, KEGG
Depends: R (>= 4.1.0)
License: AGPL-3
Encoding: UTF-8
VignetteBuilder: knitr
Suggests: BiocStyle, roxygen2, devtools, testthat (>= 2.0.0), knitr,
        rmarkdown, xml2
Imports: R6, RSQLite, Rcpp, XML, chk, fscache (>= 1.0.2), git2r,
        jsonlite, lgr, lifecycle, methods, openssl, plyr, progress,
        rappdirs, sched (>= 1.0.1), stats, stringr, tools, withr, yaml
LinkingTo: Rcpp, testthat
NeedsCompilation: yes
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Collate: 'BiodbConfig.R' 'BiodbConnBase.R' 'BiodbConn.R' 'BiodbEntry.R'
        'BiodbCsvEntry.R' 'BiodbDbInfo.R' 'BiodbDbsInfo.R'
        'BiodbEntryField.R' 'BiodbMain.R' 'BiodbEntryFields.R'
        'BiodbFactory.R' 'BiodbXmlEntry.R' 'BiodbHtmlEntry.R'
        'BiodbJsonEntry.R' 'BiodbListEntry.R' 'BiodbTxtEntry.R'
        'BiodbSdfEntry.R' 'BiodbSqlExpr.R' 'BiodbSqlBinaryOp.R'
        'BiodbSqlField.R' 'BiodbSqlList.R' 'BiodbSqlLogicalOp.R'
        'BiodbSqlQuery.R' 'BiodbSqlValue.R' 'BiodbTestMsgAck.R'
        'CsvFileConn.R' 'CompCsvFileConn.R' 'CompCsvFileEntry.R'
        'SqliteConn.R' 'CompSqliteConn.R' 'CompSqliteEntry.R'
        'ExtGenerator.R' 'ExtFileGenerator.R' 'ExtConnClass.R'
        'ExtCpp.R' 'ExtDefinitions.R' 'ExtDescriptionFile.R'
        'ExtEntryClass.R' 'ExtGitignore.R' 'ExtLicense.R'
        'ExtMakefile.R' 'ExtPackage.R' 'ExtPackageFile.R'
        'ExtRbuildignore.R' 'ExtReadme.R' 'ExtTests.R'
        'ExtTravisFile.R' 'ExtVignette.R' 'FileTemplate.R'
        'MassCsvFileConn.R' 'MassCsvFileEntry.R' 'MassSqliteConn.R'
        'MassSqliteEntry.R' 'Progress.R' 'Range.R' 'RcppExports.R'
        'TestRefEntries.R' 'catch-routine-registration.R'
        'fcts_biodb.R' 'fcts_deprecated.R' 'fcts_ext.R' 'fcts_mass.R'
        'fcts_misc.R' 'generic_tests.R' 'package.R' 'spec-dist.R'
        'test_framework.R'
git_url: https://git.bioconductor.org/packages/biodb
git_branch: devel
git_last_commit: 0068e7c
git_last_commit_date: 2025-06-12
Repository: Bioconductor 3.22
Date/Publication: 2025-06-12
Packaged: 2025-06-12 19:44:06 UTC; biocbuild
Author: Pierrick Roger [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-8177-4873>),
  Alexis Delabrière [ctb] (ORCID:
    <https://orcid.org/0000-0003-3308-4549>)
Maintainer: Pierrick Roger <pierrick.roger@cea.fr>
Built: R 4.5.0; aarch64-apple-darwin20; 2025-06-13 02:10:09 UTC; unix
