Detailed description

base class for representing a batch of alignment results on the device

Definition at line 47 of file output_batch.h.

Public Methods
	DeviceOutputBatchSE (uint32 _count, thrust::device_vector< io::Alignment > &_alignments, DeviceCigarArray _cigar, nvbio::DeviceVectorArray< uint8 > &_mds, thrust::device_vector< uint8 > &_mapq, thrust::device_vector< uint32 > *_read_ids=NULL)

void	readback_scores (thrust::host_vector< io::Alignment > &host_alignments) const

void	readback_cigars (HostCigarArray &host_cigars) const

void	readback_mds (nvbio::HostVectorArray< uint8 > &host_mds) const

void	readback_mapq (thrust::host_vector< uint8 > &host_mapq) const

void	readback_ids (thrust::host_vector< uint32 > &host_ids) const

Public Members
uint32	count

thrust::device_vector < io::Alignment > &	alignments

DeviceCigarArray	cigar

nvbio::DeviceVectorArray< uint8 > &	mds

thrust::device_vector< uint8 > &	mapq

thrust::device_vector< uint32 > *	read_ids

Constructor & Destructor Documentation

nvbio::io::DeviceOutputBatchSE::DeviceOutputBatchSE	(	uint32	_count,
		thrust::device_vector< io::Alignment > &	_alignments,
		DeviceCigarArray	_cigar,
		nvbio::DeviceVectorArray< uint8 > &	_mds,
		thrust::device_vector< uint8 > &	_mapq,
		thrust::device_vector< uint32 > *	_read_ids = `NULL`
	)

inline

Definition at line 58 of file output_batch.h.

void nvbio::io::DeviceOutputBatchSE::readback_cigars ( io::HostCigarArray & host_cigar) const

Definition at line 68 of file output_batch.cpp.

void nvbio::io::DeviceOutputBatchSE::readback_ids ( thrust::host_vector< uint32 > & host_ids) const

Definition at line 87 of file output_batch.cpp.

void nvbio::io::DeviceOutputBatchSE::readback_mapq ( thrust::host_vector< uint8 > & host_mapq) const

Definition at line 81 of file output_batch.cpp.

void nvbio::io::DeviceOutputBatchSE::readback_mds ( nvbio::HostVectorArray< uint8 > & host_mds) const

Definition at line 75 of file output_batch.cpp.

void nvbio::io::DeviceOutputBatchSE::readback_scores ( thrust::host_vector< io::Alignment > & host_alignments) const

Definition at line 61 of file output_batch.cpp.

thrust::device_vector<io::Alignment>& nvbio::io::DeviceOutputBatchSE::alignments

Definition at line 52 of file output_batch.h.

DeviceCigarArray nvbio::io::DeviceOutputBatchSE::cigar

Definition at line 53 of file output_batch.h.

uint32 nvbio::io::DeviceOutputBatchSE::count

Definition at line 50 of file output_batch.h.

thrust::device_vector<uint8>& nvbio::io::DeviceOutputBatchSE::mapq

Definition at line 55 of file output_batch.h.

nvbio::DeviceVectorArray<uint8>& nvbio::io::DeviceOutputBatchSE::mds

Definition at line 54 of file output_batch.h.

thrust::device_vector<uint32>* nvbio::io::DeviceOutputBatchSE::read_ids

Definition at line 56 of file output_batch.h.

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