DynProgr_altivec.h File Reference

Profile generation and alignment on IBM Altivec^TM instruction set. More...

#include "swps3.h"

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Functions
void *	swps3_createProfileByteAltivec (const char *query, int queryLen, SBMatrix matrix)
	C version for allocation and computation of a 8-bit integer profile for the given data type and similarity matrix.
void *	swps3_createProfileFloatAltivec (const char *query, int queryLen, SBMatrix matrix)
	C version for allocation and computation of a 32-bit floating point profile for the given data type and similarity matrix.
void *	swps3_createProfileShortAltivec (const char *query, int queryLen, SBMatrix matrix)
	C version for allocation and computation of a 16-bit integer profile for the given data type and similarity matrix.
double	swps3_dynProgrByteAltivec (const char *db, int dbLen, void *profile, Options *options)
	C version of alignment routine for Altivec for signed 8-bit integers.
double	swps3_dynProgrFloatAltivec (const char *db, int dbLen, void *profile, Options *options)
	C version of alignment routine for Altivec for signed 32-bit floating point values.
double	swps3_dynProgrShortAltivec (const char *db, int dbLen, void *profile, Options *options)
	C version of alignment routine for Altivec for signed 16-bit integers.

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Detailed Description

Profile generation and alignment on IBM Altivec^TM instruction set.

Definition in file DynProgr_altivec.h.

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Function Documentation

void* swps3_createProfileByteAltivec	(	const char *	query,
		int	queryLen,
		SBMatrix	matrix
	)

C version for allocation and computation of a 8-bit integer profile for the given data type and similarity matrix.

Parameters:

	query	The query sequence.
	queryLen	The length of the query sequence.
	matrix	The similarity matrix.

Returns:

An initialized profile data structure.

Definition at line 774 of file DynProgr_altivec.cc.

Referenced by main().

void* swps3_createProfileFloatAltivec	(	const char *	query,
		int	queryLen,
		SBMatrix	matrix
	)

C version for allocation and computation of a 32-bit floating point profile for the given data type and similarity matrix.

Parameters:

	query	The query sequence.
	queryLen	The length of the query sequence.
	matrix	The similarity matrix.

Returns:

An initialized profile data structure.

Definition at line 804 of file DynProgr_altivec.cc.

Referenced by main().

void* swps3_createProfileShortAltivec	(	const char *	query,
		int	queryLen,
		SBMatrix	matrix
	)

C version for allocation and computation of a 16-bit integer profile for the given data type and similarity matrix.

Parameters:

	query	The query sequence.
	queryLen	The length of the query sequence.
	matrix	The similarity matrix.

Returns:

An initialized profile data structure.

Definition at line 789 of file DynProgr_altivec.cc.

Referenced by main().

double swps3_dynProgrByteAltivec	(	const char *	db,
		int	dbLen,
		void *	profile,
		Options *	options
	)

C version of alignment routine for Altivec for signed 8-bit integers.

Parameters:

	db	The database sequence.
	dbLen	The length of the database sequence.
	profile	A profile data structure previously computed from the query sequence.
	options	Some global options.

Returns:

The local alignment score or DBL_MAX if score exceeds threshold.

See also:

swps3_createProfileByteAltivec()

swps3_dynProgrAltivec()

Definition at line 718 of file DynProgr_altivec.cc.

Referenced by main().

double swps3_dynProgrFloatAltivec	(	const char *	db,
		int	dbLen,
		void *	profile,
		Options *	options
	)

C version of alignment routine for Altivec for signed 32-bit floating point values.

Parameters:

	db	The database sequence.
	dbLen	The length of the database sequence.
	profile	A profile data structure previously computed from the query sequence.
	options	Some global options.

Returns:

The local alignment score or DBL_MAX if score exceeds threshold.

See also:

swps3_createProfileFloatAltivec()

swps3_dynProgrAltivec()

Definition at line 759 of file DynProgr_altivec.cc.

Referenced by main().

double swps3_dynProgrShortAltivec	(	const char *	db,
		int	dbLen,
		void *	profile,
		Options *	options
	)

C version of alignment routine for Altivec for signed 16-bit integers.

Parameters:

	db	The database sequence.
	dbLen	The length of the database sequence.
	profile	A profile data structure previously computed from the query sequence.
	options	Some global options.

Returns:

The local alignment score or DBL_MAX if score exceeds threshold.

See also:

swps3_createProfileShortAltivec()

swps3_dynProgrAltivec()

Definition at line 738 of file DynProgr_altivec.cc.

Referenced by main().

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