X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=website%2Farchive%2Fbinaries%2Fmac%2Fsrc%2Ftcoffee%2Ft_coffee_source%2Futil_dp_est.c;fp=website%2Farchive%2Fbinaries%2Fmac%2Fsrc%2Ftcoffee%2Ft_coffee_source%2Futil_dp_est.c;h=0000000000000000000000000000000000000000;hb=fb21789ba11ae9b9f6abed1b01d4542e54abfe34;hp=5a80f1fcbe3c0c5685f86a5877e680dc7e1954fb;hpb=7d68cf3489c816b2ed7afb1925a6de2168eccf4a;p=jabaws.git

diff --git a/website/archive/binaries/mac/src/tcoffee/t_coffee_source/util_dp_est.c b/website/archive/binaries/mac/src/tcoffee/t_coffee_source/util_dp_est.c
deleted file mode 100644
index 5a80f1f..0000000
--- a/website/archive/binaries/mac/src/tcoffee/t_coffee_source/util_dp_est.c
+++ /dev/null
@@ -1,89 +0,0 @@
-#include <stdio.h>
-#include <stdlib.h>
-#include <math.h>
-#include <stdarg.h>
-#include <string.h>
-
-#include "io_lib_header.h"
-#include "util_lib_header.h"
-#include "define_header.h"
-#include "dp_lib_header.h"
-
-
-
-int evaluate_est_order (Sequence *S, char *concat, Constraint_list *CL, int ktuple)
-    {
-	int a;
-        static char *alphabet;
-	int  *hasched_seq, *hasched_seq1, *hasched_seq2;
-	int  *lu_seq, *lu_seq1, *lu_seq2;
-	int pos_ktup1, pos_ktup2;
-	double score=0;
-	int n_ktup;
-	int n_dots=0;
-	
-	if ( !alphabet)alphabet=get_alphabet ( concat, alphabet);
-	n_ktup=(int)pow ( (double)alphabet[0]+1, (double)ktuple);
-	
-	hasch_seq (concat,&hasched_seq, &lu_seq,ktuple, alphabet);
-	hasched_seq1=hasched_seq2=hasched_seq;
-	lu_seq1=lu_seq2=lu_seq;
-	
-
-
-	for ( a=1; a< n_ktup; a++)
-	    {
-		pos_ktup1=lu_seq1[a];
-		
-		while (TRUE)
-		    {
-		    
-		     if (!pos_ktup1)break;
-		     pos_ktup2=lu_seq2[a];
-		     while (pos_ktup2) 
-		            {
-			    score+=abs ((int)(pos_ktup1-pos_ktup2));
-			    pos_ktup2=hasched_seq2[pos_ktup2];
-			    n_dots++;
-			    }
-		  pos_ktup1=hasched_seq1[pos_ktup1];
-		  }
-	    }
-	
-	score=(score/(double)(n_dots*strlen(concat)))*100000;
-	vfree ( hasched_seq);
-	vfree(lu_seq);
-
-
-	return score;
-    }
-	
-/******************************COPYRIGHT NOTICE*******************************/
-/*© Centro de Regulacio Genomica */
-/*and */
-/*Cedric Notredame */
-/*Fri Feb 18 08:27:45 CET 2011 - Revision 596. */
-/*All rights reserved.*/
-/*This file is part of T-COFFEE.*/
-/**/
-/*    T-COFFEE 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.*/
-/**/
-/*    T-COFFEE is distributed in the hope that it will be useful,*/
-/*    but WITHOUT ANY WARRANTY; without even the implied warranty of*/
-/*    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the*/
-/*    GNU General Public License for more details.*/
-/**/
-/*    You should have received a copy of the GNU General Public License*/
-/*    along with Foobar; if not, write to the Free Software*/
-/*    Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA*/
-/*...............................................                                                                                      |*/
-/*  If you need some more information*/
-/*  cedric.notredame@europe.com*/
-/*...............................................                                                                                                                                     |*/
-/**/
-/**/
-/*	*/
-/******************************COPYRIGHT NOTICE*******************************/