--- /dev/null
+#include <stdlib.h>
+#include <stdio.h>
+#include <math.h>
+#include <stdarg.h>
+#include <string.h>
+
+#include "io_lib_header.h"
+#include "util_lib_header.h"
+#include "define_header.h"
+
+/*********************************************************************/
+/* */
+/* MISCEANELLOUS */
+/* */
+/* */
+/*********************************************************************/
+int ** get_undefined_list (Constraint_list *CL)
+ {
+ int **list;
+ int a;
+ CLIST_TYPE x;
+ int *e;
+ list=declare_int ( (CL->S)->nseq+1, (CL->S)->max_len+1);
+
+
+ while (e=extract_entry (CL))
+ {
+ x=e[WE];
+ list[e[SEQ1]][e[R1]]=(x==UNDEFINED);
+ list[e[SEQ2]][e[R2]]=(x==UNDEFINED);
+ }
+ return list;
+ }
+
+
+
+/******************************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*******************************/