Re: Galaxy project producing their own Debian packages

[Nate Coraor <nate@bx.psu.edu>]

On Tuesday, June 28, 2016, Afif Elghraoui <afif@debian.org> wrote:
> Hello,
>
> 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

It should be straightforward to package. In case the documentation doesn't say so, numpy is a build dependency.

>
> This should a complete list, Nate promises that there are no hidden sub
> dependencies.
>
> 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.

--nate 

 

regards
Afif

1.
https://bitbucket.org/james_taylor/bx-python/issues/59/tagged-releases-corresponding-to-those-on


--
Afif Elghraoui | عفيف الغراوي
http://afif.ghraoui.name