/* * CompoundLikelihoodParser.java * * Copyright (C) 2002-2012 Alexei Drummond, Andrew Rambaut & Marc A. 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.app.beagle.evomodel.parsers; import dr.inference.model.*; import dr.xml.*; import java.util.logging.Logger; /** * @author Alexei Drummond * @author Andrew Rambaut * @author Marc Suchard */ public class CompoundLikelihoodParser extends AbstractXMLObjectParser { public static final String LIKELIHOOD = "likelihood"; public String getParserName() { return LIKELIHOOD; } public Object parseXMLObject(XMLObject xo) throws XMLParseException { ThreadedCompoundLikelihood compoundLikelihood = new ThreadedCompoundLikelihood(); for (int i = 0; i < xo.getChildCount(); i++) { if (xo.getChild(i) instanceof Likelihood) { compoundLikelihood.addLikelihood((Likelihood) xo.getChild(i)); } else { Object rogueElement = xo.getChild(i); throw new XMLParseException("An element (" + rogueElement + ") which is not a likelihood has been added to the " + LIKELIHOOD + " element"); } } Logger.getLogger("dr.evomodel").info("Multithreaded Likelihood, using " + compoundLikelihood.getLikelihoodCount() + " threads."); return compoundLikelihood; } //************************************************************************ // AbstractXMLObjectParser implementation //************************************************************************ public String getParserDescription() { return "A likelihood function which is simply the product of its component likelihood functions."; } public XMLSyntaxRule[] getSyntaxRules() { return rules; } private final XMLSyntaxRule[] rules = { new ElementRule(Likelihood.class, 1, Integer.MAX_VALUE), }; public Class getReturnType() { return CompoundLikelihood.class; } }