Re: HTSlib code copy in python-pysam.

2014-08-20 Thread Charles Plessy
Le Wed, Aug 20, 2014 at 07:06:53PM +0900, Charles Plessy a écrit : > Le Wed, Aug 20, 2014 at 11:10:32AM +0200, Andreas Tille a écrit : > > > > --- a/setup.py > > +++ b/setup.py > > @@ -32,7 +32,7 @@ IS_PYTHON3 = sys.version_info[0] >= 3 > > # pysam. > > # external: use shared libhts.so c

Re: HTSlib code copy in python-pysam.

2014-08-20 Thread Charles Plessy
Le Wed, Aug 20, 2014 at 11:10:32AM +0200, Andreas Tille a écrit : > > --- a/setup.py > +++ b/setup.py > @@ -32,7 +32,7 @@ IS_PYTHON3 = sys.version_info[0] >= 3 > # pysam. > # external: use shared libhts.so compiled outside of > # pysam > -HTSLIB = "separate" > +HTSLIB = "exter

Re: HTSlib code copy in python-pysam.

2014-08-20 Thread Andreas Tille
Hi, just a quick note: I just found something in setup.py some interesting switch and I'm experimenting with the following patch (not yet commited): Author: Andreas Tille Date: Tue, 19 Aug 2014 21:26:37 +0200 Description: setup.py allows to use external htslib which we do hereby --- a/setup.py

Re: HTSlib code copy in python-pysam.

2014-08-20 Thread Andreas Tille
Hi Charles, On Wed, Aug 20, 2014 at 06:53:49AM +0900, Charles Plessy wrote: > > I guess you spotted the code copy of the HTSlib in python-pysam ? Well, the code copy existed from the beginning of maintaining python-pysam (at this time compared to the predecessor of htslib). At this time we deci