/*
* GibbsSubtreeSwapParser.java
*
* Copyright (c) 2002-2015 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.evomodelxml.operators;
import dr.evomodel.operators.GibbsSubtreeSwap;
import dr.evomodel.tree.TreeModel;
import dr.inference.operators.MCMCOperator;
import dr.xml.*;
/**
*/
public class GibbsSubtreeSwapParser extends AbstractXMLObjectParser {
public static final String GIBBS_SUBTREE_SWAP = "GibbsSubtreeSwap";
public String getParserName() {
return GIBBS_SUBTREE_SWAP;
}
public Object parseXMLObject(XMLObject xo) throws XMLParseException {
TreeModel treeModel = (TreeModel) xo.getChild(TreeModel.class);
final double weight = xo.getDoubleAttribute(MCMCOperator.WEIGHT);
final boolean pruned = xo.getAttribute("pruned", true);
return new GibbsSubtreeSwap(treeModel, pruned, weight);
}
// ************************************************************************
// AbstractXMLObjectParser implementation
// ************************************************************************
public String getParserDescription() {
return "This element represents a Gibbs wide exchange operator. "
+ "This operator swaps two subtrees chosen to their posterior probaility.";
}
public Class getReturnType() {
return GibbsSubtreeSwap.class;
}
public XMLSyntaxRule[] getSyntaxRules() {
return rules;
}
private final XMLSyntaxRule[] rules = {
AttributeRule.newDoubleRule(MCMCOperator.WEIGHT),
AttributeRule.newBooleanRule("pruned", true),
new ElementRule(TreeModel.class)
};
}