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/***************************************************************************
* Copyright (C) 2009 by BUI Quang Minh *
* minh.bui@univie.ac.at *
* *
* This program 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. *
* *
* This program 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 this program; if not, write to the *
* Free Software Foundation, Inc., *
* 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA. *
***************************************************************************/
#include "phylotree.h"
#include "tinatree.h"
#include "parsmultistate.h"
#include "alignment.h"
void doParsMultiState(Params ¶ms) {
cout << "Here\n";
Alignment alignment(params.aln_file, params.sequence_type, params.intype);
TinaTree tree;
tree.readTree(params.user_file, params.is_rooted);
tree.setAlignment(&alignment);
tree.drawTree(cout);
cout << "Parsimony score is: " << tree.computeParsimonyScore() << endl;
cout << "Parsimony score ver2 is: " << tree.computeParsimony() << endl;
//tree.printParsimonyStates();
}
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