#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*******************************/