Re: Galaxy project producing their own Debian packages
Hellom
على الثلاثاء 28 حزيران 2016 04:51، كتب Nate Coraor:
> On Tuesday, June 28, 2016, Afif Elghraoui <afif@debian.org
> <mailto:afif@debian.org>> wrote:
> على الإثنين 27 حزيران 2016 12:04، كتب Michael Crusoe:
> > Python packages that need packaging:
> >
> > bx-python
> [...]
>
> I had started some packaging work on bx-python as a dependency for
> pbtranscript, but that seems not to be a dependency anymore, so I didn't
> pursue it. In any case, bx-python development looks to me to have
> stopped. I didn't find upstream very responsive either [1] (based on a
> communication attempt and lack of activity on bitbucket). I started some
> packaging, but it will need some hacking to work. I can push what I have
> if anyone is interested in it.
>
>
> bx-python development moved to Github, you should see more action there:
>
> https://github.com/bxlab/bx-python
>
Ah, thanks; I totally missed that.
> It should be straightforward to package. In case the documentation
> doesn't say so, numpy is a build dependency.
>
The problem I had was that the bitbucket version didn't seem to be
up-to-date with PyPI while the PyPI tarball didn't include the Cython
pyx/pyd sources. This shouldn't be an issue anymore with an up-to-date
repository.
> > They also use a custom fork of pysam
>
> What's the plan for this? Integrate the patches upstream or packaging
> the fork?
>
>
> They should be upstreamed, but I don't know when this will happen.
>
Cool. I'm currently looking after the pysam Debian package and might be
able to help with that integration.
Many thanks and regards
Afif
--
Afif Elghraoui | عفيف الغراوي
http://afif.ghraoui.name
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