core::sequence::SWAligner Class Reference

#include <SWAligner.hh>

Inheritance diagram for core::sequence::SWAligner:

Public Member Functions
	~SWAligner () override=default
	dtor More...
SequenceAlignment	align (SequenceOP seq_y, SequenceOP seq_x, ScoringSchemeOP ss) override
Public Member Functions inherited from core::sequence::Aligner
	Aligner ()
	ctor More...
	~Aligner () override=default
	dtor More...
void	validate_input (SequenceOP seq_y, SequenceOP seq_x, ScoringSchemeOP ss)
SequenceAlignment	traceback (SequenceOP seq_x, SequenceOP seq_y, DP_Matrix matrix, CellOP start)

Constructor & Destructor Documentation

~SWAligner()

core::sequence::SWAligner::~SWAligner ( )

overridedefault

dtor

Member Function Documentation

align()

SequenceAlignment core::sequence::SWAligner::align ( SequenceOP  seq_y, SequenceOP  seq_x, ScoringSchemeOP  ss  )

overridevirtual

Implements core::sequence::Aligner.

References core::sequence::above, core::scoring::alignment, core::sequence::DP_Matrix::clear(), core::sequence::diagonal, core::sequence::end, core::sequence::left, core::sequence::Aligner::traceback(), and core::sequence::Aligner::validate_input().

Referenced by protocols::loop_grower::LoopGrower::add_user_csts(), core::sequence::align_naive(), protocols::loop_grower::FragmentExtension::apply(), protocols::pdbinfo_manipulations::AlignPDBInfoToSequences::apply_multi_sequence(), protocols::pdbinfo_manipulations::AlignPDBInfoToSequences::apply_single_sequence(), protocols::comparative_modeling::get_qt_mapping_general(), core::sequence::map_seq1_seq2(), protocols::comparative_modeling::ThreadingJob::ThreadingJob(), and protocols::hybridization::HybridizeProtocol::validate_template().

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The documentation for this class was generated from the following files:

• src/core/sequence/SWAligner.hh
• src/core/sequence/SWAligner.cc