[Nix-dev] Using R with Bioconductor

[Jeffrey David Johnson]

Finally got around to writing it!

https://github.com/NixOS/nixpkgs/compare/master...jefdaj:bioc-pullreq-twofiles

I'm getting an error when installing a Bioconductor package with CRAN
dependency though... is that just me? I think they should be able to
find each other since the two sets get unioned.
Jeff

On Tue, 26 May 2015 09:31:35 -0700
Jeffrey David Johnson <jefdaj at gmail.com> wrote:

> Sure that sounds good. It would make storing the mirror type for each
> package unneccesary too. I'll see if I can set it up later today so
> the script takes 'cran' or 'bioc' as an argument and reads/writes
> cran-packages.nix or bioc-packages.nix, then default.nix can read both
> sets and map the right urls onto them before combining.
> Jeff
> 
> On Tue, 26 May 2015 10:35:21 +0200
> Peter Simons <simons at cryp.to> wrote:
> 
> > Hi Jeffrey,
> > 
> >  > https://github.com/NixOS/nixpkgs/compare/master...jefdaj:bioc-pullreq
> > 
> > this looks good to me. Thank you very much for figuring this out!
> > 
> > The only thing I'd prefer is to have packages from CRAN and Bioconductor
> > in two separate files so that it's possible to re-generate them
> > separately. Both files should be imported into one attribute set called
> > rPackages, though, that's clear.
> > 
> >  > There might be conflicts between the Bioconductor and CRAN release
> >  > schedules.
> > 
> > I don't believe there's any release schedule. People just upload new
> > packages to the repository whenever they've finished a new version. I
> > doubt that's a coordinated effort.
> > 
> > Best regards,
> > Peter
> > 
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