Defs

Detailed Description

Classes
struct	nvbio::bowtie2::cuda::edit_distance_scoring_tag
struct	nvbio::bowtie2::cuda::smith_waterman_scoring_tag
struct	nvbio::bowtie2::cuda::DebugState

Enumerations
enum	nvbio::bowtie2::cuda::EndType { nvbio::bowtie2::cuda::kSingleEnd = 0u, nvbio::bowtie2::cuda::kPairedEnds = 1u }
enum	{ nvbio::bowtie2::cuda::AVG_READ_LENGTH = 175 }
enum	{ nvbio::bowtie2::cuda::BLOCKDIM = 96 }
enum	{ nvbio::bowtie2::cuda::SCORE_MATE_BLOCKDIM = 128 }
enum	{ nvbio::bowtie2::cuda::MAX_BAND_LEN = 63 }
enum	{ nvbio::bowtie2::cuda::MAXIMUM_READ_LENGTH = 512 }
enum	{ nvbio::bowtie2::cuda::MAXIMUM_INSERT_LENGTH = 1024 }
enum	{ nvbio::bowtie2::cuda::MAXIMUM_BAND_LENGTH = 31 }
enum	{ nvbio::bowtie2::cuda::MAXIMUM_BAND_LEN_MULT = 4 }
enum	{ nvbio::bowtie2::cuda::BANDED_DP_CHECKPOINTS = 16 }
enum	{ nvbio::bowtie2::cuda::FULL_DP_CHECKPOINTS = 64 }
enum	{ nvbio::bowtie2::cuda::LMEM_CACHE_WORDS = 64 }
enum	{   nvbio::bowtie2::cuda::HIT_STATS_RANGES = 0, nvbio::bowtie2::cuda::HIT_STATS_MAX_RANGE = 1, nvbio::bowtie2::cuda::HIT_STATS_TOTAL = 2, nvbio::bowtie2::cuda::HIT_STATS_MAX = 3,   nvbio::bowtie2::cuda::HIT_STATS_TOP = 4, nvbio::bowtie2::cuda::HIT_STATS_TOP_MAX = 5, nvbio::bowtie2::cuda::HIT_STATS_BINS = 6, nvbio::bowtie2::cuda::HIT_STATS_TOP_BINS = 6 + 32 }

Enumeration Type Documentation

anonymous enum

Enumerator
AVG_READ_LENGTH

Definition at line 87 of file defs.h.

anonymous enum

Enumerator
BLOCKDIM

Definition at line 89 of file defs.h.

anonymous enum

Enumerator
SCORE_MATE_BLOCKDIM

Definition at line 91 of file defs.h.

anonymous enum

Enumerator
MAX_BAND_LEN

Definition at line 94 of file defs.h.

anonymous enum

Enumerator
MAXIMUM_READ_LENGTH

Definition at line 96 of file defs.h.

anonymous enum

Enumerator
MAXIMUM_INSERT_LENGTH

Definition at line 98 of file defs.h.

anonymous enum

Enumerator
MAXIMUM_BAND_LENGTH

Definition at line 100 of file defs.h.

anonymous enum

Enumerator
MAXIMUM_BAND_LEN_MULT

Definition at line 102 of file defs.h.

anonymous enum

Enumerator
BANDED_DP_CHECKPOINTS

Definition at line 104 of file defs.h.

anonymous enum

Enumerator
FULL_DP_CHECKPOINTS

Definition at line 105 of file defs.h.

anonymous enum

Enumerator
LMEM_CACHE_WORDS

Definition at line 108 of file defs.h.

anonymous enum

Enumerator
HIT_STATS_RANGES
HIT_STATS_MAX_RANGE
HIT_STATS_TOTAL
HIT_STATS_MAX
HIT_STATS_TOP
HIT_STATS_TOP_MAX
HIT_STATS_BINS
HIT_STATS_TOP_BINS

Definition at line 136 of file defs.h.

enum nvbio::bowtie2::cuda::EndType

Enumerator
kSingleEnd
kPairedEnds

Definition at line 84 of file defs.h.