[Biopython-dev] [Bug 2822] Bio.Application.AbstractCommandline - properties and kwargs

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=2822


biopython-bugzilla at maubp.freeserve.co.uk changed:

           What    |Removed                     |Added
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Attachment #1288 is|0                           |1
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------- Comment #4 from biopython-bugzilla at maubp.freeserve.co.uk  2009-05-04 06:57 EST -------
Created an attachment (id=1289)
 --> (http://bugzilla.open-bio.org/attachment.cgi?id=1289&action=view)
Patch to add keyword arguments and properties to command line wrappers

Brad likes the idea, and as the Bio.Application module owner that's good :)
http://lists.open-bio.org/pipermail/biopython-dev/2009-April/005963.html

This patch makes a very slight difference to reduce the changes needed to old
code (i.e. in the __init__ method use self.parameters = [...] as before) with
the bonus that the base class and subclasses have the same __init__ signature
(argument list).

This patch also now covers Bio.Align.Applications, Bio.Motif.Applications and
Bio.AlignAce.Applications as well as Bio.Emboss.Applications (i.e. all affected
files).

Peter


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