00001 /********************************************************************* 00002 * Clustal Omega - Multiple sequence alignment 00003 * 00004 * Copyright (C) 2010 University College Dublin 00005 * 00006 * Clustal-Omega is free software; you can redistribute it and/or 00007 * modify it under the terms of the GNU General Public License as 00008 * published by the Free Software Foundation; either version 2 of the 00009 * License, or (at your option) any later version. 00010 * 00011 * This file is part of Clustal-Omega. 00012 * 00013 ********************************************************************/ 00014 00015 /* 00016 * RCS $Id: ktuple_pair.h 193 2011-02-07 15:45:21Z andreas $ 00017 */ 00018 00019 /* K-Tuple code for pairwise alignment (Wilbur and Lipman (1983) 00020 * Most code taken from showpair (Clustal 1.83) 00021 */ 00022 00023 00024 #ifndef CLUSTALO_KTUPLE_PAIR_H 00025 #define CLUSTALO_KTUPLE_PAIR_H 00026 00027 #include "seq.h" 00028 #include "symmatrix.h" 00029 #include "progress.h" 00030 00031 typedef struct { 00032 int ktup; 00033 int window; 00034 int wind_gap; 00035 int signif; 00036 } ktuple_param_t; 00037 00038 00039 extern void 00040 KTuplePairDist(symmatrix_t *tmat, mseq_t *mseq, 00041 int istart, int iend, 00042 int jstart, int jend, 00043 ktuple_param_t *aln_param, 00044 progress_t *prProgress, 00045 unsigned long int *ulStepNo, unsigned long int ulTotalStepNo); 00046 00047 #endif
1.6.3