The following module was proposed for inclusion in the Module List:
modid: Prospect
DSLIP: bdpOo
description: I'face to Prospect protein threading package
userid: REECE (Reece Hart)
chapterid: 24 (Commercial_Software_Interfaces)
communities:
SourceForge (project pending)
similar:
none similar; related: Bio:: and CompBio:: trees
rationale:
Rationale for the module ------------------------ There are no
existing perl interfaces to the Prospect package; this module is
unique. We have endeavored to use other packages where possible
(e.g., Bio:: (aka bioperl)).
Rationale for the namespace --------------------------- The major
reason for choosing Prospect:: over a package name within the Bio::
or CompBio:: trees is that those are to be broad names assigned to
small groups of individuals. In particular, Bio:: is a big chunk of
namespace assigned to a group with enforced coding guidelines.
bioperl would probably not accept any package which doesn't adhere
to their coding guidelines.
I like ontologies and organization. If you can think of an
appropriate place to stick this module (be nice) then I'm happy to
discuss it. One possibility is to start a new tree with a designed
hierarchy and that is not owned by a single group. E.g., Biology::
Entities:: Sequence Structure Gene Protein Alignment ... GUI:: ...
Tools:: Prospect:: BLAST::
I know that there has been discussion on the bioperl mailing list
regarding breaking Bio:: up into subtrees in order to address this
issue, but I'm not aware of any progress on this yet.
Thanks, Reece
enteredby: REECE (Reece Hart)
enteredon: Fri Nov 14 14:23:28 2003 GMT
The resulting entry would be:
Prospect bdpOo I'face to Prospect protein threading package REECE
Thanks for registering,
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