NVBIO: nvbio::InfixSetCore< SequenceType, InfixIterator, 2u > Struct Template Reference

Detailed description

template< typename SequenceType, typename InfixIterator>
struct nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >

Represent a set of infixes of a string

Template Parameters

SequenceType	the string or string-set container
InfixIterator	the infix iterator type - value_type can be string_infix_coord_type or long_string_set_infix_coord_type

Definition at line 330 of file infix.h.

#include <infix.h>

Public Types
typedef SequenceType	sequence_type

typedef InfixIterator	infix_iterator

typedef std::iterator_traits < InfixIterator >::value_type	coord_type

typedef Infix< sequence_type, coord_type >	string_type

Public Methods
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	InfixSetCore ()

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	InfixSetCore (const uint32 size, const sequence_type sequence, const infix_iterator infixes)

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32	size () const

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE string_type	operator[] (const uint32 i) const

Public Members
uint32	m_size

sequence_type	m_sequence

infix_iterator	m_infixes

Member Typedef Documentation

template<typename SequenceType , typename InfixIterator >

typedef std::iterator_traits<InfixIterator>::value_type nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >::coord_type

Definition at line 335 of file infix.h.

template<typename SequenceType , typename InfixIterator >

typedef InfixIterator nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >::infix_iterator

Definition at line 333 of file infix.h.

template<typename SequenceType , typename InfixIterator >

typedef SequenceType nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >::sequence_type

Definition at line 332 of file infix.h.

template<typename SequenceType , typename InfixIterator >

typedef Infix<sequence_type, coord_type> nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >::string_type

Definition at line 336 of file infix.h.

Constructor & Destructor Documentation

template<typename SequenceType , typename InfixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >::InfixSetCore ( )

inline

constructor

Definition at line 341 of file infix.h.

template<typename SequenceType , typename InfixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >::InfixSetCore	(	const uint32	size,
		const sequence_type	sequence,
		const infix_iterator	infixes
	)

inline

constructor

Definition at line 346 of file infix.h.

Member Function Documentation

template<typename SequenceType , typename InfixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE string_type nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >::operator[] ( const uint32 i) const

inline

indexing operator: access the i-th string

Definition at line 362 of file infix.h.

template<typename SequenceType , typename InfixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32 nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >::size ( void ) const

inline

set size

Definition at line 357 of file infix.h.

Member Data Documentation

template<typename SequenceType , typename InfixIterator >

infix_iterator nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >::m_infixes

Definition at line 370 of file infix.h.

template<typename SequenceType , typename InfixIterator >

sequence_type nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >::m_sequence

Definition at line 369 of file infix.h.

template<typename SequenceType , typename InfixIterator >

uint32 nvbio::InfixSetCore< SequenceType, InfixIterator, 2u >::m_size

Definition at line 368 of file infix.h.

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

E:/git/nvbio/nvbio/strings/infix.h