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nvbio::aln::priv::alignment_checkpointed_dispatch< CHECKPOINTS, GotohAligner< TYPE, scoring_type >, pattern_string, qual_string, text_string, column_type > Struct Template Reference

Detailed description

template< uint32 CHECKPOINTS, AlignmentType TYPE, typename scoring_type, typename pattern_string, typename qual_string, typename text_string, typename column_type>
struct nvbio::aln::priv::alignment_checkpointed_dispatch< CHECKPOINTS, GotohAligner< TYPE, scoring_type >, pattern_string, qual_string, text_string, column_type >

Definition at line 1663 of file gotoh_inl.h.

#include <gotoh_inl.h>

Public Types

typedef GotohAligner< TYPE,
scoring_type > 		aligner_type
 

Static Public Methods

template<typename sink_type , typename checkpoint_type >
NVBIO_FORCEINLINE static
NVBIO_HOST_DEVICE void 		dispatch_checkpoints (const aligner_type aligner, const pattern_string pattern, const qual_string quals, const text_string text, const int32 min_score, sink_type &sink, checkpoint_type checkpoints, column_type column)
 
template<typename checkpoint_type , typename submatrix_type >
NVBIO_FORCEINLINE static
NVBIO_HOST_DEVICE uint32 		dispatch_submatrix (const aligner_type aligner, const pattern_string pattern, const qual_string quals, const text_string text, const int32 min_score, checkpoint_type checkpoints, const uint32 checkpoint_id, submatrix_type submatrix, column_type column)
 

Member Typedef Documentation

template<uint32 CHECKPOINTS, AlignmentType TYPE, typename scoring_type , typename pattern_string , typename qual_string , typename text_string , typename column_type >
typedef GotohAligner<TYPE,scoring_type> nvbio::aln::priv::alignment_checkpointed_dispatch< CHECKPOINTS, GotohAligner< TYPE, scoring_type >, pattern_string, qual_string, text_string, column_type >::aligner_type

Definition at line 1671 of file gotoh_inl.h.

Member Function Documentation

template<uint32 CHECKPOINTS, AlignmentType TYPE, typename scoring_type , typename pattern_string , typename qual_string , typename text_string , typename column_type >
template<typename sink_type , typename checkpoint_type >
NVBIO_FORCEINLINE static NVBIO_HOST_DEVICE void nvbio::aln::priv::alignment_checkpointed_dispatch< CHECKPOINTS, GotohAligner< TYPE, scoring_type >, pattern_string, qual_string, text_string, column_type >::dispatch_checkpoints ( const aligner_type  aligner,
const pattern_string  pattern,
const qual_string  quals,
const text_string  text,
const int32  min_score,
sink_type &  sink,
checkpoint_type  checkpoints,
column_type  column 
)
inlinestatic

Definition at line 1687 of file gotoh_inl.h.

template<uint32 CHECKPOINTS, AlignmentType TYPE, typename scoring_type , typename pattern_string , typename qual_string , typename text_string , typename column_type >
template<typename checkpoint_type , typename submatrix_type >
NVBIO_FORCEINLINE static NVBIO_HOST_DEVICE uint32 nvbio::aln::priv::alignment_checkpointed_dispatch< CHECKPOINTS, GotohAligner< TYPE, scoring_type >, pattern_string, qual_string, text_string, column_type >::dispatch_submatrix ( const aligner_type  aligner,
const pattern_string  pattern,
const qual_string  quals,
const text_string  text,
const int32  min_score,
checkpoint_type  checkpoints,
const uint32  checkpoint_id,
submatrix_type  submatrix,
column_type  column 
)
inlinestatic

Definition at line 1736 of file gotoh_inl.h.

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