/*
* JointOperatorParser.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.inferencexml.operators;
import dr.inference.operators.JointOperator;
import dr.inference.operators.SimpleMCMCOperator;
import dr.xml.*;
/**
*
*/
public class JointOperatorParser extends AbstractXMLObjectParser {
public static final String JOINT_OPERATOR = "jointOperator";
public static final String WEIGHT = "weight";
public static final String TARGET_ACCEPTANCE = "targetAcceptance";
public String getParserName() {
return JOINT_OPERATOR;
}
public Object parseXMLObject(XMLObject xo) throws XMLParseException {
final double weight = xo.getDoubleAttribute(WEIGHT);
final double targetProb = xo.getAttribute(TARGET_ACCEPTANCE, 0.2);
if (targetProb <= 0.0 || targetProb >= 1.0)
throw new RuntimeException("Target acceptance probability must be between 0.0 and 1.0");
JointOperator operator = new JointOperator(weight, targetProb);
for (int i = 0; i < xo.getChildCount(); i++) {
operator.addOperator((SimpleMCMCOperator) xo.getChild(i));
}
return operator;
}
//************************************************************************
// AbstractXMLObjectParser implementation
//************************************************************************
public String getParserDescription() {
return "This element represents an arbitrary list of operators; only the first is optimizable";
}
public Class getReturnType() {
return JointOperator.class;
}
public XMLSyntaxRule[] getSyntaxRules() {
return rules;
}
private final XMLSyntaxRule[] rules = {
new ElementRule(SimpleMCMCOperator.class, 1, Integer.MAX_VALUE),
AttributeRule.newDoubleRule(WEIGHT),
AttributeRule.newDoubleRule(TARGET_ACCEPTANCE, true)
};
}