FM-Index I/O

Detailed Description

This module contains a series of classes to load FM-indices from disk into:

• RAM
• mapped memory
• CUDA device memory

Classes
struct	nvbio::io::FMIndexDataCore
struct	nvbio::io::FMIndexData
struct	nvbio::io::FMIndexDataHost
struct	nvbio::io::FMIndexDataMMAPInfo
struct	nvbio::io::FMIndexDataMMAPServer
struct	nvbio::io::FMIndexDataMMAP
struct	nvbio::io::FMIndexDataDevice

Functions
void	nvbio::io::init_ssa (const FMIndexData &driver_data, FMIndexData::ssa_storage_type &ssa, FMIndexData::ssa_storage_type &rssa)
void	nvbio::io::init_ssa (const FMIndexDataDevice &driver_data, FMIndexDataDevice::ssa_storage_type &ssa, FMIndexDataDevice::ssa_storage_type &rssa)

Function Documentation

void nvbio::io::init_ssa	(	const FMIndexData &	driver_data,
		FMIndexData::ssa_storage_type &	ssa,
		FMIndexData::ssa_storage_type &	rssa
	)

void nvbio::io::init_ssa	(	const FMIndexDataDevice &	driver_data,
		FMIndexDataDevice::ssa_storage_type &	ssa,
		FMIndexDataDevice::ssa_storage_type &	rssa
	)

initialize the sampled suffix arrays on the GPU given a device-side FM-index.