NVBIO: nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u > Struct Template Reference

Detailed description

template< typename SequenceType, typename PrefixIterator>
struct nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >

Represent a set of prefixes of a string

Template Parameters

SequenceType	the string or string-set container
PrefixIterator	the prefix iterator type - value_type can be uint32 or uint64

Definition at line 312 of file prefix.h.

#include <prefix.h>

Public Types
typedef SequenceType	sequence_type

typedef PrefixIterator	prefix_iterator

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

typedef Prefix< sequence_type, coord_type >	string_type

Public Methods
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	PrefixSetCore ()

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	PrefixSetCore (const uint32 size, const sequence_type sequence, const prefix_iterator prefixes)

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

prefix_iterator	m_prefixes

Member Typedef Documentation

template<typename SequenceType , typename PrefixIterator >

typedef std::iterator_traits<PrefixIterator>::value_type nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >::coord_type

Definition at line 317 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

typedef PrefixIterator nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >::prefix_iterator

Definition at line 315 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

typedef SequenceType nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >::sequence_type

Definition at line 314 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

typedef Prefix<sequence_type, coord_type> nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >::string_type

Definition at line 318 of file prefix.h.

Constructor & Destructor Documentation

template<typename SequenceType , typename PrefixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >::PrefixSetCore ( )

inline

constructor

Definition at line 323 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >::PrefixSetCore	(	const uint32	size,
		const sequence_type	sequence,
		const prefix_iterator	prefixes
	)

inline

constructor

Definition at line 328 of file prefix.h.

Member Function Documentation

template<typename SequenceType , typename PrefixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE string_type nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >::operator[] ( const uint32 i) const

inline

indexing operator: access the i-th string

Definition at line 344 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE uint32 nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >::size ( void ) const

inline

set size

Definition at line 339 of file prefix.h.

Member Data Documentation

template<typename SequenceType , typename PrefixIterator >

prefix_iterator nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >::m_prefixes

Definition at line 352 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

sequence_type nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >::m_sequence

Definition at line 351 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

uint32 nvbio::PrefixSetCore< SequenceType, PrefixIterator, 1u >::m_size

Definition at line 350 of file prefix.h.

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

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