/*
* ConditionalCladeProbability.java
*
* Copyright (c) 2002-2016 Alexei Drummond, Andrew Rambaut and Marc Suchard
*
* This file is part of BEAST.
* See the NOTICE file distributed with this work for additional
* information regarding copyright ownership and licensing.
*
* BEAST is free software; you can redistribute it and/or modify
* it under the terms of the GNU Lesser General Public License as
* published by the Free Software Foundation; either version 2
* of the License, or (at your option) any later version.
*
* BEAST 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 Lesser General Public License for more details.
*
* You should have received a copy of the GNU Lesser General Public
* License along with BEAST; if not, write to the
* Free Software Foundation, Inc., 51 Franklin St, Fifth Floor,
* Boston, MA 02110-1301 USA
*/
package dr.evomodel.tree;
import dr.evolution.tree.SimpleTree;
import dr.evomodel.tree.ConditionalCladeFrequency;
import dr.evomodel.tree.TreeModel;
import dr.inference.model.Likelihood;
public class ConditionalCladeProbability extends Likelihood.Abstract {
private ConditionalCladeFrequency ccf;
private TreeModel treeModel;
public ConditionalCladeProbability(ConditionalCladeFrequency ccf, TreeModel treeModel) {
super(null);
this.ccf = ccf;
this.treeModel = treeModel;
}
@Override
protected double calculateLogLikelihood() {
SimpleTree simTree = new SimpleTree(treeModel);
//System.err.println("tree: " + simTree);
//System.err.println(ccf.getTreeProbability(simTree));
return ccf.getTreeProbability(simTree);
}
/**
* Overridden to always return false.
*/
protected boolean getLikelihoodKnown() {
return false;
}
}