nvbio::PackedStringLoader< StorageIterator, SYMBOL_SIZE_T, BIG_ENDIAN_T, uncached_tag > Struct Template Reference

Detailed description

template< typename StorageIterator, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T>
struct nvbio::PackedStringLoader< StorageIterator, SYMBOL_SIZE_T, BIG_ENDIAN_T, uncached_tag >

A no-op specialization of the PackedStringLoader, which actually doesn't perform any caching

Definition at line 124 of file packedstream_loader.h.

#include <packedstream_loader.h>

Public Types
typedef std::iterator_traits < StorageIterator > ::value_type	storage_type
typedef PackedStream < StorageIterator, uint8, SYMBOL_SIZE_T, BIG_ENDIAN_T >	input_stream
typedef input_stream	input_iterator
typedef PackedStream < StorageIterator, uint8, SYMBOL_SIZE_T, BIG_ENDIAN_T > ::iterator	iterator

Public Methods
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE iterator	load (const input_stream stream, const uint32 length)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE iterator	load (const input_stream stream, const uint32 length, const uint2 substring_range, const uint32 rev_flag)

Member Typedef Documentation

template<typename StorageIterator , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T>

typedef input_stream nvbio::PackedStringLoader< StorageIterator, SYMBOL_SIZE_T, BIG_ENDIAN_T, uncached_tag >::input_iterator

Definition at line 128 of file packedstream_loader.h.

template<typename StorageIterator , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T>

typedef PackedStream<StorageIterator,uint8,SYMBOL_SIZE_T,BIG_ENDIAN_T> nvbio::PackedStringLoader< StorageIterator, SYMBOL_SIZE_T, BIG_ENDIAN_T, uncached_tag >::input_stream

Definition at line 127 of file packedstream_loader.h.

template<typename StorageIterator , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T>

typedef PackedStream<StorageIterator,uint8,SYMBOL_SIZE_T,BIG_ENDIAN_T>::iterator nvbio::PackedStringLoader< StorageIterator, SYMBOL_SIZE_T, BIG_ENDIAN_T, uncached_tag >::iterator

Definition at line 129 of file packedstream_loader.h.

template<typename StorageIterator , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T>

typedef std::iterator_traits<StorageIterator>::value_type nvbio::PackedStringLoader< StorageIterator, SYMBOL_SIZE_T, BIG_ENDIAN_T, uncached_tag >::storage_type

Definition at line 126 of file packedstream_loader.h.

Member Function Documentation

template<typename StorageIterator , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T>

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE PackedStringLoader< StorageIterator, SYMBOL_SIZE_T, BIG_ENDIAN_T, uncached_tag >::iterator nvbio::PackedStringLoader< StorageIterator, SYMBOL_SIZE_T, BIG_ENDIAN_T, uncached_tag >::load	(	const input_stream	stream,
		const uint32	length
	)

given a packed stream, load part of it starting at the given offset, and return an iterator to the first loaded symbol

Parameters

stream	input stream storage
length	length of the substring to load

Definition at line 143 of file packedstream_loader_inl.h.

template<typename StorageIterator , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T>

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE PackedStringLoader< StorageIterator, SYMBOL_SIZE_T, BIG_ENDIAN_T, uncached_tag >::iterator nvbio::PackedStringLoader< StorageIterator, SYMBOL_SIZE_T, BIG_ENDIAN_T, uncached_tag >::load	(	const input_stream	stream,
		const uint32	length,
		const uint2	substring_range,
		const uint32	rev_flag
	)

given a packed stream, and a window of symbols that is virtually mapped to the cache,
load a substring of it and return an iterator to the first symbol of the window.

/// [....|*****|####|****|...]
///       ^    ^    ^    ^
///   offset=5 |    |    offset+length
///            |    |
///        loaded_range = (6,10)
/// 

Parameters

stream	input stream storage
length	length of the mapped substring
loaded_range	range of the substring to load
rev_flag	true if the range is specified wrt reversed coordinates

Definition at line 151 of file packedstream_loader_inl.h.

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

• E:/git/nvbio/nvbio/basic/packedstream_loader.h
• E:/git/nvbio/nvbio/basic/packedstream_loader_inl.h