Please review wip/bwa

This is the first in a long series of genomics packages I've developed 
and plan to submit.

pkglint -e runs clean, but I'm inviting some ruthlessly critical 
feedback on this one so that future packages will require minimal tampering.

Thanks,

     Jason

-- 
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   Jason W. Bacon
   [email protected]

   If a problem can be solved,
   there's no need to worry.
   
   If it cannot be solved, then
   worrying will do no good.
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~


------------------------------------------------------------------------------
Monitor Your Dynamic Infrastructure at Any Scale With Datadog!
Get real-time metrics from all of your servers, apps and tools
in one place.
SourceForge users - Click here to start your Free Trial of Datadog now!
http://pubads.g.doubleclick.net/gampad/clk?id=241902991&iu=/4140