NVBIO: nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u > Struct Template Reference

Detailed description

template< typename SequenceType, typename PrefixIterator>
struct nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u >

Represent a set of prefixes of a string-set

Template Parameters

SequenceType	the string or string-set type
PrefixIterator	the prefix iterator type - value_type can be string_set_prefix_coord_type or long_string_set_prefix_coord_type

Definition at line 363 of file prefix.h.

#include <prefix.h>

Public Types
typedef SequenceType	sequence_type

typedef PrefixIterator	prefix_iterator

typedef sequence_type::string_type	base_string_type

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

typedef Prefix < base_string_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 sequence_type::string_type nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u >::base_string_type

Definition at line 368 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

typedef std::iterator_traits<PrefixIterator>::value_type nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u >::coord_type

Definition at line 369 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

typedef PrefixIterator nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u >::prefix_iterator

Definition at line 366 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

typedef SequenceType nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u >::sequence_type

Definition at line 365 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

typedef Prefix<base_string_type, coord_type> nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u >::string_type

Definition at line 370 of file prefix.h.

Constructor & Destructor Documentation

template<typename SequenceType , typename PrefixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u >::PrefixSetCore ( )

inline

constructor

Definition at line 375 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u >::PrefixSetCore	(	const uint32	size,
		const sequence_type	sequence,
		const prefix_iterator	prefixes
	)

inline

constructor

Definition at line 380 of file prefix.h.

Member Function Documentation

template<typename SequenceType , typename PrefixIterator >

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

inline

indexing operator: access the i-th string

Definition at line 396 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

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

inline

set size

Definition at line 391 of file prefix.h.

Member Data Documentation

template<typename SequenceType , typename PrefixIterator >

prefix_iterator nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u >::m_prefixes

Definition at line 404 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

sequence_type nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u >::m_sequence

Definition at line 403 of file prefix.h.

template<typename SequenceType , typename PrefixIterator >

uint32 nvbio::PrefixSetCore< SequenceType, PrefixIterator, 2u >::m_size

Definition at line 402 of file prefix.h.

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

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