nvbio::SuffixSetCore< SequenceType, SuffixIterator, 1u > Struct Template Reference

Detailed description

template< typename SequenceType, typename SuffixIterator>
struct nvbio::SuffixSetCore< SequenceType, SuffixIterator, 1u >

Represent a set of suffixes of a string

Template Parameters

SequenceType	the string or string-set container
SuffixIterator	the suffix iterator type - value_type can be uint32 or uint64

Definition at line 314 of file suffix.h.

#include <suffix.h>

Public Types
typedef SequenceType	sequence_type
typedef SuffixIterator	suffix_iterator
typedef std::iterator_traits < SuffixIterator >::value_type	coord_type
typedef Suffix< sequence_type, coord_type >	string_type

Public Methods
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	SuffixSetCore ()
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	SuffixSetCore (const uint32 size, const sequence_type sequence, const suffix_iterator suffixes)
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
suffix_iterator	m_suffixes

Member Typedef Documentation

template<typename SequenceType , typename SuffixIterator >

typedef std::iterator_traits<SuffixIterator>::value_type nvbio::SuffixSetCore< SequenceType, SuffixIterator, 1u >::coord_type

Definition at line 319 of file suffix.h.

template<typename SequenceType , typename SuffixIterator >

typedef SequenceType nvbio::SuffixSetCore< SequenceType, SuffixIterator, 1u >::sequence_type

Definition at line 316 of file suffix.h.

template<typename SequenceType , typename SuffixIterator >

typedef Suffix<sequence_type, coord_type> nvbio::SuffixSetCore< SequenceType, SuffixIterator, 1u >::string_type

Definition at line 320 of file suffix.h.

template<typename SequenceType , typename SuffixIterator >

typedef SuffixIterator nvbio::SuffixSetCore< SequenceType, SuffixIterator, 1u >::suffix_iterator

Definition at line 317 of file suffix.h.

Constructor & Destructor Documentation

template<typename SequenceType , typename SuffixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::SuffixSetCore< SequenceType, SuffixIterator, 1u >::SuffixSetCore ( )

inline

constructor

Definition at line 325 of file suffix.h.

template<typename SequenceType , typename SuffixIterator >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::SuffixSetCore< SequenceType, SuffixIterator, 1u >::SuffixSetCore ( const uint32  size, const sequence_type  sequence, const suffix_iterator  suffixes  )

inline

constructor

Definition at line 330 of file suffix.h.

Member Function Documentation

template<typename SequenceType , typename SuffixIterator >

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

inline

indexing operator: access the i-th string

Definition at line 346 of file suffix.h.

template<typename SequenceType , typename SuffixIterator >

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

inline

set size

Definition at line 341 of file suffix.h.

Member Data Documentation

template<typename SequenceType , typename SuffixIterator >

sequence_type nvbio::SuffixSetCore< SequenceType, SuffixIterator, 1u >::m_sequence

Definition at line 353 of file suffix.h.

template<typename SequenceType , typename SuffixIterator >

uint32 nvbio::SuffixSetCore< SequenceType, SuffixIterator, 1u >::m_size

Definition at line 352 of file suffix.h.

template<typename SequenceType , typename SuffixIterator >

suffix_iterator nvbio::SuffixSetCore< SequenceType, SuffixIterator, 1u >::m_suffixes

Definition at line 354 of file suffix.h.

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

• E:/git/nvbio/nvbio/strings/suffix.h