NVBIO: nvbio::aln::BatchedBandedAlignmentScore< BAND_LEN, stream_type, algorithm_type > Struct Template Reference

Detailed description

template< uint32 BAND_LEN, typename stream_type, typename algorithm_type = DeviceThreadScheduler>
struct nvbio::aln::BatchedBandedAlignmentScore< BAND_LEN, stream_type, algorithm_type >

see BatchedAlignmentScore

Definition at line 337 of file batched.h.

#include <batched.h>

Public Types
typedef stream_type::aligner_type	aligner_type

typedef checkpoint_storage_type < aligner_type >::type	cell_type

Public Methods
void	enact (stream_type stream, uint64 temp_size=0u, uint8 *temp=NULL)

Static Public Methods
static uint64	min_temp_storage (const uint32 max_pattern_len, const uint32 max_text_len, const uint32 stream_size)

static uint64	max_temp_storage (const uint32 max_pattern_len, const uint32 max_text_len, const uint32 stream_size)

Member Typedef Documentation

template<uint32 BAND_LEN, typename stream_type, typename algorithm_type = DeviceThreadScheduler>

typedef stream_type::aligner_type nvbio::aln::BatchedBandedAlignmentScore< BAND_LEN, stream_type, algorithm_type >::aligner_type

Definition at line 339 of file batched.h.

template<uint32 BAND_LEN, typename stream_type, typename algorithm_type = DeviceThreadScheduler>

typedef checkpoint_storage_type<aligner_type>::type nvbio::aln::BatchedBandedAlignmentScore< BAND_LEN, stream_type, algorithm_type >::cell_type

Definition at line 340 of file batched.h.

Member Function Documentation

template<uint32 BAND_LEN, typename stream_type, typename algorithm_type = DeviceThreadScheduler>

void nvbio::aln::BatchedBandedAlignmentScore< BAND_LEN, stream_type, algorithm_type >::enact	(	stream_type	stream,
		uint64	temp_size = `0u`,
		uint8 *	temp = `NULL`
	)

enact the batch execution

template<uint32 BAND_LEN, typename stream_type, typename algorithm_type = DeviceThreadScheduler>

static uint64 nvbio::aln::BatchedBandedAlignmentScore< BAND_LEN, stream_type, algorithm_type >::max_temp_storage	(	const uint32	max_pattern_len,
		const uint32	max_text_len,
		const uint32	stream_size
	)

static

return the maximum number of bytes required by the algorithm

template<uint32 BAND_LEN, typename stream_type, typename algorithm_type = DeviceThreadScheduler>

static uint64 nvbio::aln::BatchedBandedAlignmentScore< BAND_LEN, stream_type, algorithm_type >::min_temp_storage	(	const uint32	max_pattern_len,
		const uint32	max_text_len,
		const uint32	stream_size
	)

static

return the minimum number of bytes required by the algorithm

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

E:/git/nvbio/nvbio/alignment/batched.h