nvbio::SSA_index_multiple< K, index_type > Struct Template Reference

Detailed description

template< uint32 K, typename index_type = uint32>
struct nvbio::SSA_index_multiple< K, index_type >

Build a sampled suffix array storing only the values at positions which are a multiple of K, i.e. { SA[i] | i % K = 0 }

Definition at line 255 of file ssa.h.

#include <ssa.h>

Public Types
typedef index_type	value_type
typedef SSA_index_multiple_context< K, const index_type * >	context_type
typedef SSA_index_multiple_device< K, index_type >	device_type
typedef context_type	device_view_type
typedef context_type	plain_view_type

Public Methods
	SSA_index_multiple ()
	SSA_index_multiple (const index_type n, const index_type *sa)
template<typename FMIndexType >
	SSA_index_multiple (const FMIndexType &fmi)
	SSA_index_multiple (const SSA_index_multiple_device< K, index_type > &ssa)
SSA_index_multiple &	operator= (const SSA_index_multiple_device< K, index_type > &ssa)
context_type	get_context () const

Public Members
index_type	m_n
std::vector< index_type >	m_ssa

Member Typedef Documentation

template<uint32 K, typename index_type = uint32>

typedef SSA_index_multiple_context<K, const index_type*> nvbio::SSA_index_multiple< K, index_type >::context_type

Definition at line 258 of file ssa.h.

template<uint32 K, typename index_type = uint32>

typedef SSA_index_multiple_device<K,index_type> nvbio::SSA_index_multiple< K, index_type >::device_type

Definition at line 259 of file ssa.h.

template<uint32 K, typename index_type = uint32>

typedef context_type nvbio::SSA_index_multiple< K, index_type >::device_view_type

Definition at line 260 of file ssa.h.

template<uint32 K, typename index_type = uint32>

typedef context_type nvbio::SSA_index_multiple< K, index_type >::plain_view_type

Definition at line 261 of file ssa.h.

template<uint32 K, typename index_type = uint32>

typedef index_type nvbio::SSA_index_multiple< K, index_type >::value_type

Definition at line 257 of file ssa.h.

Constructor & Destructor Documentation

template<uint32 K, typename index_type = uint32>

nvbio::SSA_index_multiple< K, index_type >::SSA_index_multiple ( )

inline

empty constructor

Definition at line 265 of file ssa.h.

template<uint32 K, typename index_type >

nvbio::SSA_index_multiple< K, index_type >::SSA_index_multiple ( const index_type  n, const index_type *  sa  )

inline

constructor

Parameters

n	number of entries in the SA
sa	suffix array

Definition at line 264 of file ssa_inl.h.

template<uint32 K, typename index_type >

template<typename FMIndexType >

nvbio::SSA_index_multiple< K, index_type >::SSA_index_multiple

(

const FMIndexType &

fmi)

constructor

Parameters

fmi	FM index
K	compression factor

Definition at line 284 of file ssa_inl.h.

template<uint32 K, typename index_type >

nvbio::SSA_index_multiple< K, index_type >::SSA_index_multiple

(

const SSA_index_multiple_device< K, index_type > &

ssa)

constructor

Parameters

ssa	device-side ssa

Definition at line 315 of file ssa_inl.h.

Member Function Documentation

template<uint32 K, typename index_type = uint32>

context_type nvbio::SSA_index_multiple< K, index_type >::get_context ( ) const

inline

get a context

Definition at line 297 of file ssa.h.

template<uint32 K, typename index_type >

SSA_index_multiple< K, index_type > & nvbio::SSA_index_multiple< K, index_type >::operator=

(

const SSA_index_multiple_device< K, index_type > &

ssa)

copy operator

Parameters

ssa	device-side ssa

Definition at line 330 of file ssa_inl.h.

Member Data Documentation

template<uint32 K, typename index_type = uint32>

index_type nvbio::SSA_index_multiple< K, index_type >::m_n

Definition at line 299 of file ssa.h.

template<uint32 K, typename index_type = uint32>

std::vector<index_type> nvbio::SSA_index_multiple< K, index_type >::m_ssa

Definition at line 300 of file ssa.h.

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

• E:/git/nvbio/nvbio/fmindex/ssa.h
• E:/git/nvbio/nvbio/fmindex/ssa_inl.h