NVBIO
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DeviceThreadScheduler specialization of BatchedAlignmentTraceback.
stream_type | the stream of alignment jobs |
Definition at line 707 of file batched_inl.h.
#include <batched_inl.h>
Public Types | |
typedef stream_type::aligner_type | aligner_type |
typedef column_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 uint32 | column_storage (const uint32 max_pattern_len, const uint32 max_text_len) |
static uint32 | checkpoint_storage (const uint32 max_pattern_len, const uint32 max_text_len) |
static uint32 | submatrix_storage (const uint32 max_pattern_len, const uint32 max_text_len) |
static uint32 | element_storage (const uint32 max_pattern_len, const uint32 max_text_len) |
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) |
typedef stream_type::aligner_type nvbio::aln::BatchedAlignmentTraceback< CHECKPOINTS, stream_type, DeviceThreadBlockScheduler< BLOCKDIM, MINBLOCKS > >::aligner_type |
Definition at line 709 of file batched_inl.h.
typedef column_storage_type<aligner_type>::type nvbio::aln::BatchedAlignmentTraceback< CHECKPOINTS, stream_type, DeviceThreadBlockScheduler< BLOCKDIM, MINBLOCKS > >::cell_type |
Definition at line 710 of file batched_inl.h.
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inlinestatic |
return the per-element checkpoint storage size
Definition at line 725 of file batched_inl.h.
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inlinestatic |
return the per-element column storage size
Definition at line 714 of file batched_inl.h.
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inlinestatic |
return the per-element storage size
Definition at line 755 of file batched_inl.h.
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inlinestatic |
return the per-element storage size
Definition at line 735 of file batched_inl.h.