ProfileScoreSubMatrix.cc File Reference

scores a fragment by substitution matrix (e.g. Blosum62) profile score More...

#include <core/types.hh>
#include <protocols/frag_picker/scores/ProfileScoreSubMatrix.hh>
#include <protocols/frag_picker/FragmentPicker.hh>
#include <protocols/frag_picker/FragmentCandidate.hh>
#include <protocols/frag_picker/VallChunk.hh>
#include <protocols/frag_picker/scores/FragmentScoreMap.hh>
#include <core/sequence/SequenceProfile.hh>
#include <core/sequence/MatrixScoringScheme.hh>
#include <core/chemical/AA.hh>
#include <utility/file/FileName.hh>
#include <basic/options/keys/OptionKeys.hh>
#include <basic/prof.hh>
#include <basic/Tracer.hh>
#include <utility/vector1.hh>

Namespaces
	protocols
	The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.
	protocols::frag_picker
	protocols::frag_picker::scores

Functions
static basic::Tracer	protocols::frag_picker::scores::trProfScoreSubMatrix ("protocols.frag_picker.scores.ProfileScoreSubMatrix")

Detailed Description

scores a fragment by substitution matrix (e.g. Blosum62) profile score

Author

Dan Kulp (dwkul.nosp@m.p@gm.nosp@m.ail.c.nosp@m.om), based on code from Dominik Gront (dgron.nosp@m.t@ch.nosp@m.em.uw.nosp@m..edu.nosp@m..pl)