Hi Diane,
Running pysam tests during buildtime would be very helpful. I just run the tests manually and stumbled upon a bug in samtools.
(
http://code.google.com/p/pysam/issues/detail?id=71 ) I wonder why this hasn't been fixed upstream, anyway, I am going to patch Debian's samtools package with the proposed fix.
You can find Debian's pysam package here:
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 multiple times (python 2.6+2.7+3.0 etc..)
Cheers
-Dominique