DynProgr_sse_short.c File Reference

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

#include "DynProgr_sse_short.h"
#include <stdio.h>
#include <unistd.h>
#include <float.h>

Include dependency graph for DynProgr_sse_short.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
double	swps3_alignmentShort2SSE (ProfileShort *query, const char *db, int dbLen, Options *options)
EXPORT double	swps3_alignmentShortSSE (ProfileShort *query, const char *db, int dbLen, Options *options)
EXPORT ProfileShort *	swps3_createProfileShortSSE (const char *query, int queryLen, SBMatrix matrix)
EXPORT void	swps3_freeProfileShortSSE (ProfileShort *profile)

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Detailed Description

Profile generation and alignment for packed short vectors on SSE2.

Definition in file DynProgr_sse_short.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 35 of file DynProgr_sse_short.c.

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Function Documentation

double swps3_alignmentShort2SSE	(	ProfileShort *	query,
		const char *	db,
		int	dbLen,
		Options *	options
	)

Definition at line 69 of file DynProgr_sse_short.c.

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

EXPORT double swps3_alignmentShortSSE	(	ProfileShort *	query,
		const char *	db,
		int	dbLen,
		Options *	options
	)

Definition at line 249 of file DynProgr_sse_short.c.

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

Referenced by main().

EXPORT ProfileShort* swps3_createProfileShortSSE	(	const char *	query,
		int	queryLen,
		SBMatrix	matrix
	)

Definition at line 36 of file DynProgr_sse_short.c.

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

Referenced by main().

EXPORT void swps3_freeProfileShortSSE

(

ProfileShort *

profile

)

Definition at line 397 of file DynProgr_sse_short.c.

Referenced by main().

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