getbest.c File Reference

#include <stdio.h>
#include <malloc.h>
#include "seqaln.h"

Functions
	gettop (SEQALN_SEQUENCE *seq1, SEQALN_SEQUENCE *seq2, SEQALN_CONSTANTS *scoring, SEQALN_RESULTS *results, SEQALN_IO *io)
	initmaxS (SEQALN_SEQUENCE *seq1, SEQALN_SEQUENCE *seq2, SEQALN_CONSTANTS *scoring, SEQALN_RESULTS *results, SEQALN_IO *io)
	getminS (struct SEQALN_SEQUENCE *seq1, struct SEQALN_SEQUENCE *seq2, struct SEQALN_CONSTANTS *scoring, struct SEQALN_RESULTS *results, struct SEQALN_IO *io)
	getmaxS (struct SEQALN_SEQUENCE *seq1, struct SEQALN_SEQUENCE *seq2, struct SEQALN_CONSTANTS *scoring, struct SEQALN_RESULTS *results, struct SEQALN_IO *io)
	srgetmaxS (struct SEQALN_SEQUENCE *seq1, struct SEQALN_SEQUENCE *seq2, struct SEQALN_CONSTANTS *scoring, struct SEQALN_RESULTS *results, struct SEQALN_IO *io)
Variables
static int	init = 1

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Function Documentation

getmaxS	(	struct SEQALN_SEQUENCE *	seq1,
		struct SEQALN_SEQUENCE*	seq2,
		struct SEQALN_CONSTANTS *	scoring,
		struct SEQALN_RESULTS *	results,
		struct SEQALN_IO *	io
	)

References SEQALN_RESULTS::aligned, SEQALN_RESULTS::bestS, SEQALN_RESULTS::bestSi, SEQALN_RESULTS::bestSj, SEQALN_CONSTANTS::naligns, SEQALN_RESULTS::S, and SEQALN_IO::STDERR.

Referenced by gettop(), and lsdeclump().

getminS	(	struct SEQALN_SEQUENCE *	seq1,
		struct SEQALN_SEQUENCE*	seq2,
		struct SEQALN_CONSTANTS *	scoring,
		struct SEQALN_RESULTS *	results,
		struct SEQALN_IO *	io
	)

References SEQALN_RESULTS::bestS, SEQALN_RESULTS::bestSi, SEQALN_RESULTS::bestSj, and SEQALN_RESULTS::S.

Referenced by gettop().

gettop	(	SEQALN_SEQUENCE *	seq1,
		SEQALN_SEQUENCE *	seq2,
		SEQALN_CONSTANTS *	scoring,
		SEQALN_RESULTS *	results,
		SEQALN_IO *	io
	)

References getmaxS(), getminS(), SEQALN_CONSTANTS::mtype, and SIMILARITY.

initmaxS	(	SEQALN_SEQUENCE *	seq1,
		SEQALN_SEQUENCE *	seq2,
		SEQALN_CONSTANTS *	scoring,
		SEQALN_RESULTS *	results,
		SEQALN_IO *	io
	)

References SEQALN_CONSTANTS::alpha, SEQALN_RESULTS::best, SEQALN_CONSTANTS::beta, SEQALN_SEQUENCE::len, max, SEQALN_RESULTS::maxentry, min, and topscore().

Referenced by srgetmaxS().

srgetmaxS	(	struct SEQALN_SEQUENCE *	seq1,
		struct SEQALN_SEQUENCE*	seq2,
		struct SEQALN_CONSTANTS *	scoring,
		struct SEQALN_RESULTS *	results,
		struct SEQALN_IO *	io
	)

References SEQALN_RESULTS::aligned, SEQALN_RESULTS::best, SEQALN_RESULTS::bestS, SEQALN_RESULTS::bestSi, SEQALN_RESULTS::bestSj, init, initmaxS(), SEQALN_CONSTANTS::naligns, SEQALN_RESULTS::S, and SEQALN_IO::STDERR.

Referenced by srlsdeclump().

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Variable Documentation

int init = 1 [static]

Referenced by srgetmaxS().