reads.cpp File Reference

#include <nvbio/io/reads/reads.h>
#include <nvbio/io/reads/reads_priv.h>
#include <nvbio/io/reads/reads_fastq.h>
#include <nvbio/io/reads/reads_txt.h>
#include <nvbio/io/reads/sam.h>
#include <nvbio/io/reads/bam.h>
#include <nvbio/basic/console.h>
#include <nvbio/basic/vector_view.h>
#include <nvbio/basic/timer.h>
#include <cuda_runtime.h>
#include <string.h>

Go to the source code of this file.

Classes
struct	nvbio::io::read_string< FLAGS >

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

Macros
#define	PRESIZE_VECTORS(vec, x)
#define	ADJUST_VECTORS(vec, x)
#define	RESIZE_VECTORS(vec, x)   vec.resize(x)

Functions
ReadDataStream *	nvbio::io::open_read_file (const char *read_file_name, const QualityEncoding qualities, const uint32 max_reads, const uint32 truncate_read_len, const ReadEncoding flags)
template<QualityEncoding quality_encoding, typename read_type >
void	nvbio::io::encode (const read_type read, ReadData::read_stream_type::iterator stream, char *qual_stream)
template<typename read_type >
void	nvbio::io::encode (const QualityEncoding quality_encoding, const read_type read, ReadData::read_stream_type::iterator stream, char *qual_stream)
void	nvbio::io::encode (const ReadDataRAM::StrandOp conversion_flags, const QualityEncoding quality_encoding, const uint32 read_len, const uint8 *read, const uint8 *quality, ReadData::read_stream_type::iterator stream, char *qual_stream)

Macro Definition Documentation

#define ADJUST_VECTORS	(		vec,
			x
	)

Definition at line 297 of file reads.cpp.

#define PRESIZE_VECTORS	(		vec,
			x
	)

Definition at line 296 of file reads.cpp.

#define RESIZE_VECTORS	(		vec,
			x
	)		vec.resize(x)

Definition at line 298 of file reads.cpp.