[Biopython-dev] [Bug 2815] Bio.Application command line interfaces

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Thu May 7 15:22:35 UTC 2009


------- Comment #27 from biopython-bugzilla at maubp.freeserve.co.uk  2009-05-07 11:22 EST -------
(In reply to comment #26)
> > I think the final bit of new code is _Dialign.py which still needs to be
> > updated for the new style __init__ method.
> Done - pushed to applic-int (Note windows path stuff absent from _Dialign)

OK, that is in CVS now.

> > Then there are your unit tests...
> As they are at present, unittests for Muscle, Mafft, Dialign and Prank all
> pass. They could of course be made arbitrarily more complex... they should
> probably have at least one test that uses the properties style parameter
> setting rather than just set_paramter()
> C.

I've added test_Dialign_tool.py to CVS, and then switched a few to using
keyword arguments and properties.  As far as I can see from here, the tool
isn't expected to work on Windows (although it might still be possible with

Is that everything?  You'd mentioned a more general test which just builds the
strings, but doesn't actually need to run any of the tools themselves.

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