blockwise_sufsort.h File Reference

#include <nvbio/sufsort/sufsort_priv.h>
#include <nvbio/sufsort/compression_sort.h>
#include <nvbio/sufsort/prefix_doubling_sufsort.h>
#include <nvbio/sufsort/dcs.h>
#include <nvbio/strings/string_set.h>
#include <nvbio/basic/thrust_view.h>
#include <nvbio/basic/cuda/sort.h>
#include <nvbio/basic/timer.h>
#include <thrust/device_vector.h>
#include <thrust/transform_scan.h>
#include <thrust/binary_search.h>
#include <thrust/iterator/constant_iterator.h>
#include <thrust/iterator/counting_iterator.h>
#include <thrust/sort.h>
#include <mgpuhost.cuh>
#include <moderngpu.cuh>

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Namespaces
	nvbio
	Define a vector_view POD type and plain_view() for std::vector.
	nvbio::cuda

Macros
#define	COMPRESSION_SORTING

Functions
template<typename string_type , typename suffix_iterator , typename output_handler >
void	nvbio::cuda::blockwise_suffix_sort (const typename string_type::index_type string_len, string_type string, const typename string_type::index_type n_suffixes, suffix_iterator suffixes, output_handler &output, const DCS *dcs, BWTParams *params)
template<typename string_type >
void	nvbio::cuda::blockwise_build (DCS &dcs, const typename string_type::index_type string_len, string_type string, BWTParams *params)

Macro Definition Documentation

#define COMPRESSION_SORTING