Is there a way to find all the available packages on BioConductor in an R program, as in utils::available.packages() to get all the CRAN packages? I searched for this and read the BiocInstaller docs but didn't see how to do it.
Thanks! FYI, this is for automated package testing for the FastR project: https://github.com/graalvm/fastr
Package testing likely requires experiment and annotation packages, which is likely BiocInstaller::biocinstallRepos()[1:3], but maybe decide based on
> BiocInstaller:::biocinstallRepos()
BioCsoft
"https://bioconductor.org/packages/3.5/bioc"
BioCann
"https://bioconductor.org/packages/3.5/data/annotation"
BioCexp
"https://bioconductor.org/packages/3.5/data/experiment"
BioCextra
"https://bioconductor.org/packages/3.5/extra"
CRAN
"https://cran.rstudio.com"
It will likely be more efficient to use mirror via rsync to maintain a local repository, rather than installing built binaries over http.
Yes, I wondered about those other entries. I go back and forth on maintaining a local copy (of CRAN) which is what we test now, a few hundred packages a day on a rolling basis. We have to build everything from source anyway (at least those packages with native code) as FastR is not binary-compatible with the C code.
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version 2.3.6
EDIT: