Re: [PATCH 2/3] gnu: Add python-pyxb.

[Ben Woodcroft]

On 27/09/16 04:32, Marius Bakke wrote:
> Ben Woodcroft <address@hidden> writes:
>
> > On 24/09/16 13:15, Marius Bakke wrote:
> > > Ben Woodcroft <address@hidden> writes:
> > >
> > > > > Htslib is propagated because it
> > > > > is included by the installed samtools and bcftools headers; at least one
> > > > > of pysams dependencies failed to build when it was a regular input.
> > > > Ah, I see. Can this be avoided with patchelf?
> > > I don't think so. The htslib headers need to be propagated for anything
> > > that uses header files from pysam, since they contain contain code such
> > > as "include <htslib/foo.h>". Perhaps you can update the comment to make
> > > it more clear?
> > >
> > > Patchelf is probably what made that work when htslib was bundled.
> > Ah, ok I see, so the problem is that python-plastid requires the .h
> > files during build. Given that this is the only package that has an
> > issue, and perhaps pysam doesn't intend to provide these .h files as
> > part of it's "interface", I think it might be best to simply put htslib
> > as an input to python-plastid.
> I'm not sure, we would have to do this with every package that uses
> the pysam cython interface.
Ah, you're right. I overlooked the cython interface.

I pushed the series propagating htslib with pysam, ending in 99caa6f.

Thanks for persevering.
ben