1 /*********************************************************************
2 * Clustal Omega - Multiple sequence alignment
4 * Copyright (C) 2010 University College Dublin
6 * Clustal-Omega is free software; you can redistribute it and/or
7 * modify it under the terms of the GNU General Public License as
8 * published by the Free Software Foundation; either version 2 of the
9 * License, or (at your option) any later version.
11 * This file is part of Clustal-Omega.
13 ********************************************************************/
16 * RCS $Id: ktuple_pair.h 193 2011-02-07 15:45:21Z andreas $
19 /* K-Tuple code for pairwise alignment (Wilbur and Lipman (1983)
20 * Most code taken from showpair (Clustal 1.83)
24 #ifndef CLUSTALO_KTUPLE_PAIR_H
25 #define CLUSTALO_KTUPLE_PAIR_H
28 #include "symmatrix.h"
40 KTuplePairDist(symmatrix_t *tmat, mseq_t *mseq,
43 ktuple_param_t *aln_param,
44 progress_t *prProgress,
45 unsigned long int *ulStepNo, unsigned long int ulTotalStepNo);