DynProgr_sse_byte.c File Reference

Profile generation and alignment for packed byte vectors on SSE2. More...

#include "DynProgr_sse_byte.h"
#include "debug.h"
#include <unistd.h>
#include <stdio.h>
#include <float.h>

Include dependency graph for DynProgr_sse_byte.c:

Go to the source code of this file.

Defines
#define	PAGE_ALIGN(x)   (((size_t)(x)+sysconf(_SC_PAGESIZE)-1)&~(sysconf(_SC_PAGESIZE)-1))
Functions
EXPORT double	swps3_alignmentByteSSE (ProfileByte *query, const char *db, int dbLen, Options *options)
EXPORT ProfileByte *	swps3_createProfileByteSSE (const char *query, int queryLen, SBMatrix matrix)
	Creates a profile with unsigned 8 bit integers.
EXPORT void	swps3_freeProfileByteSSE (ProfileByte *profile)

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Detailed Description

Profile generation and alignment for packed byte vectors on SSE2.

Definition in file DynProgr_sse_byte.c.

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Define Documentation

#define PAGE_ALIGN

(

x

)

(((size_t)(x)+sysconf(_SC_PAGESIZE)-1)&~(sysconf(_SC_PAGESIZE)-1))

Definition at line 36 of file DynProgr_sse_byte.c.

Referenced by swps3_createProfileByteSSE(), and swps3_createProfileShortSSE().

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Function Documentation

EXPORT double swps3_alignmentByteSSE	(	ProfileByte *	query,
		const char *	db,
		int	dbLen,
		Options *	options
	)

Definition at line 78 of file DynProgr_sse_byte.c.

References ProfileByte::bias, debug, Options::gapExt, Options::gapOpen, ProfileByte::len, LIKELY, ProfileByte::loadOpt, loadOpt, ProfileByte::profile, ProfileByte::rD, rD, ProfileByte::storeOpt, storeOpt, and UNLIKELY.

Referenced by main().

EXPORT ProfileByte* swps3_createProfileByteSSE	(	const char *	query,
		int	queryLen,
		SBMatrix	matrix
	)

Creates a profile with unsigned 8 bit integers.

Definition at line 40 of file DynProgr_sse_byte.c.

References ProfileByte::bias, ProfileByte::data, debug, ProfileByte::len, ProfileByte::loadOpt, MATRIX_DIM, PAGE_ALIGN, ProfileByte::profile, profile, ProfileByte::rD, and ProfileByte::storeOpt.

Referenced by main().

EXPORT void swps3_freeProfileByteSSE

(

ProfileByte *

profile

)

Definition at line 235 of file DynProgr_sse_byte.c.

Referenced by main().

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