/* * DirichletProcessLikelihoodParser.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.distribution; import dr.inference.distribution.DirichletProcessLikelihood; import dr.inference.model.*; import dr.xml.*; /** * */ public class DirichletProcessLikelihoodParser extends AbstractXMLObjectParser { public static final String ETA = "eta"; public static final String CHI = "chi"; public String getParserName() { return DirichletProcessLikelihood.DIRICHLET_PROCESS_LIKELIHOOD; } public Object parseXMLObject(XMLObject xo) throws XMLParseException { XMLObject cxo = xo.getChild(ETA); Statistic etaParam = (Statistic) cxo.getChild(Statistic.class); cxo = xo.getChild(CHI); Parameter chiParameter = (Parameter) cxo.getChild(Parameter.class); return new DirichletProcessLikelihood(etaParam, chiParameter); } //************************************************************************ // AbstractXMLObjectParser implementation //************************************************************************ public XMLSyntaxRule[] getSyntaxRules() { return rules; } private final XMLSyntaxRule[] rules = { new ElementRule(ETA, new XMLSyntaxRule[]{new ElementRule(Statistic.class)}, "Counts of N items distributed amongst K classes"), new ElementRule(CHI, new XMLSyntaxRule[]{new ElementRule(Parameter.class)}, "Aggregation parameter"), }; public String getParserDescription() { return "Calculates the likelihood of some items distributed into a number of classes under a Dirichlet drocess."; } public Class getReturnType() { return Likelihood.class; } }