search

bioconda / bioconda-recipes

Conda recipes for the bioconda channel.
https://bioconda.github.io
MIT License
1.62k stars 3.24k forks source link

biom-format and Python 3 support #1310

Closed wasade closed 8 years ago

wasade commented 8 years ago

biom-format 2.1.5 supports Python 3.4 and 3.5, but the py3 builds are not available within bioconda. I suspect this is because the dependency stack for py3 differs. Notably, the Python 2 package pyqi is not part of the biom-format py3 build. Is it possible to specify Python version specific dependencies? I apologize if this is a trivial thing, I'm not very familiar with what can be done in meta.yaml and I didn't see a means with a quick google search.

johanneskoester commented 8 years ago

Thanks for reporting! Indeed, it is possible to specify dependencies for python3 that differ from python2. @bgruening any interest/time in taking this over, since you posted the package? We should add to our guidelines that Python 3 versions should be generated if possible. I don't want bioconda to slow down this much needed transition.

wasade commented 8 years ago

Ah, fantastic!

@bgruening, I'd be glad to help if needed.

bgruening commented 8 years ago

@wasade sure. Any other difference between the py2k and py3k builds besides pyqi?

wasade commented 8 years ago

Shouldn't be. We do docs via Sphinx off the 2.7 build, but that isn't pertinent here afaik. Travis config here.

bgruening commented 8 years ago

@wasade have a look at this PR: https://github.com/bioconda/bioconda-recipes/pull/1313

bgruening commented 8 years ago

Done!

wasade commented 8 years ago

Thanks!!

On Wed, Apr 13, 2016 at 2:55 PM, Björn Grüning notifications@github.com wrote:

Done!

— You are receiving this because you were mentioned. Reply to this email directly or view it on GitHub https://github.com/bioconda/bioconda-recipes/issues/1310#issuecomment-209664652