[Debian-med-packaging] Bug#733398: Bug#733398: Should we create a seqan1.3 package for bowtie and tophat

[Charles Plessy]

> On 02/21/2014 02:21 PM, Andreas Tille wrote:
> >
> > since both packages bowtie (1.0!) and tophat stopped building from
> > source since we switched to seqan 1.4 (both bug reports in CC) and
> > upstream of both programs did not responded since > three weeks I wonder
> > whether we should reintroduce a seqan 1.3 package to be able to build
> > the packages again.  As far as I understood both have some relevance in
> > several workflows and we should not leave these with release critical
> > bugs.

Le Fri, Feb 21, 2014 at 03:39:26PM +0100, Olivier Sallou a écrit :
> 
> those programs are indeed commonly used in bioinformatics  and are
> really necessary.
> Keeping an older version of seqan would be a good idea.

I agree, these are standard programs in the field, and if they can not switch
to seqan 1.3, there is not much we can do appart from accepting the code
duplication with sequan 1.4.

In that sense, if introducing a 1.3 package does not work or is too much work,
we can also simply keep the convenience copy from the original upstream source.

Have a nice week-end,

Charles

-- 
Charles Plessy
Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan