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