NVBIO: nvbio::StringBWTSSAHandler< string_type, output_bwt_iterator, output_ssa_iterator > Struct Template Reference

Detailed description

template< typename string_type, typename output_bwt_iterator, typename output_ssa_iterator>
struct nvbio::StringBWTSSAHandler< string_type, output_bwt_iterator, output_ssa_iterator >

a utility StringSuffixHandler to retain the BWT and a Sampled Suffix Array

Definition at line 536 of file sufsort_utils.h.

#include <sufsort_utils.h>

Public Methods
	StringBWTSSAHandler (const uint32 _string_len, const string_type _string, const uint32 _mod, output_bwt_iterator _bwt, output_ssa_iterator _ssa)

void	process_batch (const uint32 n_suffixes, const uint32 *d_suffixes)

void	process_scattered (const uint32 n_suffixes, const uint32 d_suffixes, const uint32 d_slots)

uint32	primary () const

void	remove_dollar ()

Public Members
StringBWTHandler< string_type, output_bwt_iterator >	bwt_handler

StringSSAHandler < output_ssa_iterator >	ssa_handler

Constructor & Destructor Documentation

template<typename string_type , typename output_bwt_iterator , typename output_ssa_iterator >

nvbio::StringBWTSSAHandler< string_type, output_bwt_iterator, output_ssa_iterator >::StringBWTSSAHandler	(	const uint32	_string_len,
		const string_type	_string,
		const uint32	_mod,
		output_bwt_iterator	_bwt,
		output_ssa_iterator	_ssa
	)

inline

Definition at line 538 of file sufsort_utils.h.

Member Function Documentation

template<typename string_type , typename output_bwt_iterator , typename output_ssa_iterator >

uint32 nvbio::StringBWTSSAHandler< string_type, output_bwt_iterator, output_ssa_iterator >::primary ( ) const

inline

Definition at line 570 of file sufsort_utils.h.

template<typename string_type , typename output_bwt_iterator , typename output_ssa_iterator >

void nvbio::StringBWTSSAHandler< string_type, output_bwt_iterator, output_ssa_iterator >::process_batch	(	const uint32	n_suffixes,
		const uint32 *	d_suffixes
	)

inline

Definition at line 549 of file sufsort_utils.h.

template<typename string_type , typename output_bwt_iterator , typename output_ssa_iterator >

void nvbio::StringBWTSSAHandler< string_type, output_bwt_iterator, output_ssa_iterator >::process_scattered	(	const uint32	n_suffixes,
		const uint32 *	d_suffixes,
		const uint32 *	d_slots
	)

inline

Definition at line 559 of file sufsort_utils.h.

template<typename string_type , typename output_bwt_iterator , typename output_ssa_iterator >

void nvbio::StringBWTSSAHandler< string_type, output_bwt_iterator, output_ssa_iterator >::remove_dollar ( )

inline

Definition at line 574 of file sufsort_utils.h.

Member Data Documentation

template<typename string_type , typename output_bwt_iterator , typename output_ssa_iterator >

StringBWTHandler<string_type,output_bwt_iterator> nvbio::StringBWTSSAHandler< string_type, output_bwt_iterator, output_ssa_iterator >::bwt_handler

Definition at line 579 of file sufsort_utils.h.

template<typename string_type , typename output_bwt_iterator , typename output_ssa_iterator >

StringSSAHandler<output_ssa_iterator> nvbio::StringBWTSSAHandler< string_type, output_bwt_iterator, output_ssa_iterator >::ssa_handler

Definition at line 580 of file sufsort_utils.h.

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

E:/git/nvbio/nvbio/sufsort/sufsort_utils.h