Detailed description

A sink for valid alignments, mantaining the best two alignments

Definition at line 114 of file sink.h.

#include <sink.h>

Public Methods
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	Best2Sink (const uint32 distinct_dist=0)

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void	invalidate ()

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void	report (const ScoreType score, const uint2 sink)

Constructor & Destructor Documentation

template<typename ScoreType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::aln::Best2Sink< ScoreType >::Best2Sink ( const uint32 distinct_dist = 0)

constructor

Parameters

distinct_distance the minimum text distance to consider two alignments distinct

Definition at line 74 of file sink_inl.h.

template<typename ScoreType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void nvbio::aln::Best2Sink< ScoreType >::invalidate ( )

invalidate

Definition at line 85 of file sink_inl.h.

template<typename ScoreType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void nvbio::aln::Best2Sink< ScoreType >::report	(	const ScoreType	score,
		const uint2	sink
	)

store a valid alignment

Parameters

score	alignment's score
sink	alignment's end

Definition at line 100 of file sink_inl.h.

template<typename ScoreType >

ScoreType nvbio::aln::Best2Sink< ScoreType >::score1

Definition at line 135 of file sink.h.

template<typename ScoreType >

ScoreType nvbio::aln::Best2Sink< ScoreType >::score2

Definition at line 136 of file sink.h.

template<typename ScoreType >

uint2 nvbio::aln::Best2Sink< ScoreType >::sink1

Definition at line 137 of file sink.h.

template<typename ScoreType >

uint2 nvbio::aln::Best2Sink< ScoreType >::sink2

Definition at line 138 of file sink.h.

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