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[jabaws.git] / website / archive / binaries / mac / src / clustalo / src / clustal / ktuple_pair.h

diff --git a/website/archive/binaries/mac/src/clustalo/src/clustal/ktuple_pair.h b/website/archive/binaries/mac/src/clustalo/src/clustal/ktuple_pair.h
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--- a/website/archive/binaries/mac/src/clustalo/src/clustal/ktuple_pair.h
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-/*********************************************************************
- * Clustal Omega - Multiple sequence alignment
- *
- * Copyright (C) 2010 University College Dublin
- *
- * Clustal-Omega is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License as
- * published by the Free Software Foundation; either version 2 of the
- * License, or (at your option) any later version.
- *
- * This file is part of Clustal-Omega.
- *
- ********************************************************************/
-
-/*
- *  RCS $Id: ktuple_pair.h 193 2011-02-07 15:45:21Z andreas $
- */
-
-/* K-Tuple code for pairwise alignment (Wilbur and Lipman (1983)
- * Most code taken from showpair (Clustal 1.83)
- */
-
-
-#ifndef CLUSTALO_KTUPLE_PAIR_H
-#define CLUSTALO_KTUPLE_PAIR_H
-
-#include "seq.h"
-#include "symmatrix.h"
-#include "progress.h"
-
-typedef struct {
-    int ktup;
-    int window;
-    int wind_gap;
-    int signif;
-} ktuple_param_t;
-
-
-extern void
-KTuplePairDist(symmatrix_t *tmat, mseq_t *mseq,
-               int istart, int iend,
-               int jstart, int jend,
-               ktuple_param_t *aln_param,
-               progress_t *prProgress, 
-                          unsigned long int *ulStepNo, unsigned long int ulTotalStepNo);
-
-#endif