Package: biodb
Title: biodb, a library and a development framework for connecting to
        chemical and biological databases
Version: 1.16.0
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://github.com/pkrog/biodb
BugReports: https://github.com/pkrog/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, covr, xml2
Imports: BiocFileCache, R6, RCurl, RSQLite, Rcpp, XML, chk, git2r,
        jsonlite, lgr, lifecycle, methods, openssl, plyr, progress,
        rappdirs, stats, stringr, tools, withr, yaml
LinkingTo: Rcpp, testthat
NeedsCompilation: yes
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
Collate: 'BiodbPersistentCache.R' 'BiodbBiocPersistentCache.R'
        'BiodbConfig.R' 'BiodbConnBase.R' 'BiodbConn.R' 'BiodbEntry.R'
        'BiodbCsvEntry.R' 'BiodbCustomPersistentCache.R'
        'BiodbDbInfo.R' 'BiodbDbsInfo.R' 'BiodbEntryField.R'
        'BiodbMain.R' 'BiodbEntryFields.R' 'BiodbFactory.R'
        'BiodbXmlEntry.R' 'BiodbHtmlEntry.R' 'BiodbJsonEntry.R'
        'BiodbListEntry.R' 'BiodbUrl.R' 'BiodbRequest.R'
        'BiodbRequestScheduler.R' 'BiodbRequestSchedulerRule.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'
        'RequestResult.R' 'TestRefEntries.R'
        'catch-routine-registration.R' 'fcts_biodb.R'
        'fcts_deprecated.R' 'fcts_ext.R' 'fcts_mass.R' 'fcts_misc.R'
        'fcts_url.R' 'generic_tests.R' 'package.R' 'spec-dist.R'
        'test_framework.R'
git_url: https://git.bioconductor.org/packages/biodb
git_branch: RELEASE_3_21
git_last_commit: 2dd6d33
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.21
Date/Publication: 2025-04-15
Packaged: 2025-04-15 23:22:58 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; x86_64-w64-mingw32; 2025-04-16 13:59:37 UTC; windows
Archs: x64
