[Bioperl-l] bioperl-run

[Jason Stajich]

Did some much needed cleaning up as I couldn't run some of the wrappers
in there when I needed to.  I think I have finally given StandAloneBlast
a good whitewashing to genericize the exe finding and bring it into line
with the way exe wrappers should be written to inherit from
Bio::Tools::Run::WrapperBase.  TCoffee was also brought into line there -
still need to do Clustalw if anyone wants to get their feet wet, it should
be trivial.

A couple more tests are failing for me - but may be dependent on my
installed Phylip version.

-jason

-- 
Jason Stajich
Duke University
jason at cgt.mc.duke.edu