/* * DefaultModelParser.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.model; import dr.inference.model.DefaultModel; import dr.inference.model.Parameter; import dr.xml.AbstractXMLObjectParser; import dr.xml.ElementRule; import dr.xml.XMLObject; import dr.xml.XMLSyntaxRule; /** * */ public class DefaultModelParser extends AbstractXMLObjectParser { public static final String DUMMY_MODEL = "dummyModel"; public String getParserName() { return DUMMY_MODEL; } public Object parseXMLObject(XMLObject xo) { DefaultModel likelihood = new DefaultModel(); for (int i = 0; i < xo.getChildCount(); i++) { Parameter parameter = (Parameter) xo.getChild(i); likelihood.addVariable(parameter); } return likelihood; } //************************************************************************ // AbstractXMLObjectParser implementation //************************************************************************ public String getParserDescription() { return "A function wraps a component model that would otherwise not be registered with the MCMC. Always returns a log likelihood of zero."; } public Class getReturnType() { return DefaultModel.class; } public XMLSyntaxRule[] getSyntaxRules() { return rules; } private final XMLSyntaxRule[] rules = { new ElementRule(Parameter.class, 1, Integer.MAX_VALUE) }; }