Re: pysam package

2012-12-21 Thread Charles Plessy
Le Wed, Dec 19, 2012 at 05:56:30PM -0800, Diane Trout a écrit : > > I had built our own version of samtools so it created a shared library. It > then ocurred to me to try building pysam against this shared library. I was > able make it work well enough to run pysams test cases. > > Would modifyin

Re: pysam package

2012-12-19 Thread Andreas Tille
Hi Diane, On Wed, Dec 19, 2012 at 05:56:30PM -0800, Diane Trout wrote: > Hello, > > I had built our own version of samtools so it created a shared library. It > then ocurred to me to try building pysam against this shared library. I was > able make it work well enough to run pysams test cases.

Re: pysam package

2012-12-19 Thread Diane Trout
Hello, I had built our own version of samtools so it created a shared library. It then ocurred to me to try building pysam against this shared library. I was able make it work well enough to run pysams test cases. Would modifying the debian samtools and tabix packages to build shared objects b

Re: pysam package

2012-12-19 Thread Diane Trout
yway, I am going to patch Debian's samtools > package with the proposed fix. > > You can find Debian's pysam package here: > >http://anonscm.debian.org/gitweb/?p=debian-med/pysam.git > > Howe are you running the tests right now? Is there a way to specify a &g

Re: pysam package

2012-12-19 Thread Dominique Belhachemi
ckage with the proposed fix. You can find Debian's pysam package here: http://anonscm.debian.org/gitweb/?p=debian-med/pysam.git Howe are you running the tests right now? Is there a way to specify a temporary test output directory? This would be helpful in case we want to run the tests

Re: pysam package

2012-12-19 Thread Charles Plessy
Le Wed, Dec 19, 2012 at 06:22:45PM +0900, Charles Plessy a écrit : > > you are very welcome to take over the work on pysam Together with Dominique of course. Cheers, -- Charles -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact

Re: pysam package

2012-12-19 Thread Charles Plessy
Le Wed, Dec 19, 2012 at 09:16:41AM +0100, Andreas Tille a écrit : > > I forgot to mention explicitely that the metainformation on the right of > >http://debian-med.alioth.debian.org/tasks/bio-dev#python-pysam > > points to the Git reporistory were other members of the Debian Med team > have

Re: pysam package

2012-12-19 Thread Andreas Tille
Hi again, :-) somehow our mails have crossed ... On Wed, Dec 19, 2012 at 09:11:20AM +0100, Olivier Sallou wrote: > ... > For example, your copyright format must be like: > http://www.debian.org/doc/manuals/maint-guide/dreq.en.html#copyright. I forgot to mention explicitely that the metainformati

Re: pysam package

2012-12-19 Thread Andreas Tille
Hi Diane, thanks for your offer to work together with the Debian Med team. On Tue, Dec 18, 2012 at 07:02:35PM -0800, Diane Trout wrote: > I've been maintaining a pysam package for my lab, and realized that other > people might find pysam[1] useful. > > I used stdeb, git-

Re: pysam package

2012-12-19 Thread Olivier Sallou
-BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Le 12/19/12 4:02 AM, Diane Trout a écrit : > Hi, > > I've been maintaining a pysam package for my lab, and realized that other people might find pysam[1] useful. > > I used stdeb, git-buildpackage, and pbuilder to m

pysam package

2012-12-18 Thread Diane Trout
Hi, I've been maintaining a pysam package for my lab, and realized that other people might find pysam[1] useful. I used stdeb, git-buildpackage, and pbuilder to make my own package[2]. Unfortunately since I haven't actually talked to experienced packagers I'm sure there are