cufmi::bowtie2::cuda::HitReference< HitQueuesType > Struct Template Reference

Detailed description

template< typename HitQueuesType>
struct cufmi::bowtie2::cuda::HitReference< HitQueuesType >

A reference to a hit

Template Parameters

HitQueuesType

can be either HitQueues or HitQueuesView.

Definition at line 23 of file proposal.h.

#include <proposal.h>

Public Types
typedef reference_subtype < typename HitQueuesType::ssa_storage_type > ::type	ssa_type
typedef reference_subtype < typename HitQueuesType::loc_storage_type > ::type	loc_type
typedef reference_subtype < typename HitQueuesType::sink_storage_type > ::type	score_type
typedef reference_subtype < typename HitQueuesType::score_storage_type > ::type	sink_type

Public Methods
	HitReference (HitQueuesType &hits, const uint32 hit_index)

Public Members
uint32	parent
	parent read index More...
ssa_type	ssa
	ssa reference More...
loc_type	loc
	loc reference More...
score_type	score
	score reference More...
sink_type	sink
	sink reference More...
loc_type	opposite_loc
	opposite mate's loc reference More...
score_type	opposite_score
	opposite mate's score reference More...
sink_type	opposite_sink
	opposite mate's sink reference More...

Member Typedef Documentation

template<typename HitQueuesType >

typedef reference_subtype<typename HitQueuesType::loc_storage_type>::type cufmi::bowtie2::cuda::HitReference< HitQueuesType >::loc_type

Definition at line 223 of file proposal.h.

template<typename HitQueuesType >

typedef reference_subtype<typename HitQueuesType::sink_storage_type>::type cufmi::bowtie2::cuda::HitReference< HitQueuesType >::score_type

Definition at line 224 of file proposal.h.

template<typename HitQueuesType >

typedef reference_subtype<typename HitQueuesType::score_storage_type>::type cufmi::bowtie2::cuda::HitReference< HitQueuesType >::sink_type

Definition at line 225 of file proposal.h.

template<typename HitQueuesType >

typedef reference_subtype<typename HitQueuesType::ssa_storage_type>::type cufmi::bowtie2::cuda::HitReference< HitQueuesType >::ssa_type

Definition at line 222 of file proposal.h.

Constructor & Destructor Documentation

template<typename HitQueuesType >

cufmi::bowtie2::cuda::HitReference< HitQueuesType >::HitReference	(	HitQueuesType &	hits,
		const uint32	hit_index
	)

constructor

Parameters

hits	hits container
hit_index	index of this hit

Member Data Documentation

template<typename HitQueuesType >

loc_type cufmi::bowtie2::cuda::HitReference< HitQueuesType >::loc

loc reference

Definition at line 235 of file proposal.h.

template<typename HitQueuesType >

loc_type cufmi::bowtie2::cuda::HitReference< HitQueuesType >::opposite_loc

opposite mate's loc reference

Definition at line 238 of file proposal.h.

template<typename HitQueuesType >

score_type cufmi::bowtie2::cuda::HitReference< HitQueuesType >::opposite_score

opposite mate's score reference

Definition at line 239 of file proposal.h.

template<typename HitQueuesType >

sink_type cufmi::bowtie2::cuda::HitReference< HitQueuesType >::opposite_sink

opposite mate's sink reference

Definition at line 240 of file proposal.h.

template<typename HitQueuesType >

uint32 cufmi::bowtie2::cuda::HitReference< HitQueuesType >::parent

parent read index

Definition at line 233 of file proposal.h.

template<typename HitQueuesType >

score_type cufmi::bowtie2::cuda::HitReference< HitQueuesType >::score

score reference

Definition at line 236 of file proposal.h.

template<typename HitQueuesType >

sink_type cufmi::bowtie2::cuda::HitReference< HitQueuesType >::sink

sink reference

Definition at line 237 of file proposal.h.

template<typename HitQueuesType >

ssa_type cufmi::bowtie2::cuda::HitReference< HitQueuesType >::ssa

ssa reference

Definition at line 234 of file proposal.h.

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

• E:/git/nvbio/vs/proposal.h