Function reference • BiocQE

All functions
`PackageSet()`	constructor for PackageSet instances
`add_dependencies(<PackageSet>)`	method for adding dependencies to PackageSet as determined by BiocPkgTools
`bbs_check_built()`	not exported, rely instead on rcmdcheck do check_built and clean up
`bcc_to_dataframes()`	produce list of data.frames for storage of BiocCheck::BiocCheck results in SQLite
`bioc_3.10_software_2020.03.17`	a vector of package names needed for a fairly complete BBS run, 17 march 2020
`bioc_coreset()`	define a small collection of packages of interest
`bioc_maint_packs`	a data.frame of packages maintained by Bioconductor Package Maintainer on June 11 2021
`browse_checks()`	developer report on package check process in shiny
`build1()`	prepare and build a package tarball, not exported because we use build1_with_buildsink to capture log
`build1_with_buildsink()`	run build1 and capture the R CMD build log
`cov_tab_demo`	a list of covr::package_coverage results, thinned for demonstration purposes, produced dec 2019
`demo_bccheck_out`	a list of BiocCheck::BiocCheck results for demonstration purposes, produced nov 2020
`demo_bcchk_out`	a list of BiocCheck::BiocCheck results for demonstration purposes, produced nov 2020
`demo_rcmdcheck_out`	a list of rcmdcheck::rcmdcheck results for demonstration purposes, produced dec 2019
`demo_rcmdchk_out`	a list of rcmdcheck::rcmdcheck results for demonstration purposes, produced dec 2019
`fulfill_deps()`	use BiocManager::install to get any unavailable dependencies as defined by BiocPkgTools
`full_dep_opts()`	a vector listing the key dependencies with correct orthography
`get_pnet()`	use pkgnet to analyze a source folder (including covr statistics)
`getpk()`	use HTTPS to clone a package from Bioconductor git
`installed_r`	a vector of package names needed for a fairly complete BBS run, jul 7 2019
`local_gits_behind_bioc()`	check all repos in a folder for version entry less than the one reported by BiocPkgTools::biocPkgList
`local_gits_with_uninstalled_dependencies()`	not clear that this is needed provide a list of packages for which dependencies are not installed
`make_pnet_object()`	make a serialized collection of pkgnet reports
`populate_local_gits()`	use git via BiocBBSpack::getpk to retrieve sources into a folder
`print(<BBT_pkgnet>)`	compact view of a pkgnet list
`process_artifacts()`	process outputs of tbchecks and get_pnet to run browse_checks
`rcc_to_dataframes()`	produce list of data.frames for storage of R CMD check results in SQLite
`safe_rcmdcheck()`	deal with errors at build stage when attempting to check
`soft_021520`	a vector of package names needed for a fairly complete BBS run, 15 feb 2020
`soft_2020_04_20`	a vector of package names needed for a fairly complete BBS run, 15 feb 2020
`status_db_init()`	initialize a status database
`tbcheck()`	check an R package tarball
`update_status_db()`	add a dataframe, optionally purging related obsolete records, to a SQLite database

Reference

All functions