Roel Janssen <r...@gnu.org> writes:
>> > commit 1f56ec08af704bdc7aa3e143bf5ce351c5306dea >> > Author: Roel Janssen <r...@gnu.org> >> > AuthorDate: Wed Sep 9 16:56:02 2020 +0200 >> > >> > gnu: Add r-loomr. >> > >> > * gnu/packages/bioinformatics.scm (r-loomr): New variable. >> >> This is not free software. See >> >> https://github.com/mojaveazure/loomR/pull/24 > > > Oh shoot. I'm sorry I didn't see this discussion! It’s really not obvious. I know because it happened to me too. In 2018 I added r-loomr with commit fab43c6b84635200070c708d4220132be18dd239. Then in 2019 I removed it with commit bc70516bbae8a6388f3ed19008d3e10efd1577a7 after noticing that the author only used GPL in the DESCRIPTION file to stop the CRAN tools from complaining. It’s definitely unusual and very easy to miss. >> Aside from this, I would like to say two things: >> >> > gnu/packages/bioinformatics.scm | 26 ++++++++++++++++++++++++++ >> >> Let’s please not add R packages to (gnu packages bioinformatics) when >> it >> can be avoided. (In this case there’s no CRAN package, so it’s >> fine.) > > Where would I add a non-CRAN and non-Bioconductor package to? Perhaps > this situation won't occur again, and should raise a flag, because I > think I've never had this case before. We don’t have any good place for those packages. It would be good to have a dumping ground for packages like that, and for those that are on CRAN but unusually depend on Bioconductor packages. > I will default to submitting patches to guix-patches again. I thought > it was trivial enough to just push. My mistake. I’d say if it’s on CRAN you can go ahead and push directly (after running “guix lint” to catch some obvious mistakes). Bioconductor packages need a little extra care because they are sometimes playing loose with licenses and included third-party code; but if you feel you’ve checked things carefully then you can also push those directly. For third-party R packages we don’t benefit from even the little bit of quality control that CRAN and Bioconductor impose, so we need to be extra careful. There it helps to send patches to guix-patches and push them after some time. -- Ricardo
