/* * SwapParameterOperatorParser.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.model.Parameter; import dr.inference.operators.SwapParameterGibbsOperator; import dr.inference.operators.SwapParameterOperator; import dr.xml.*; import java.util.ArrayList; import java.util.List; /** */ public class SwapParameterOperatorParser extends AbstractXMLObjectParser { public final static String SWAP_OPERATOR = "swapParameterOperator"; public static final String FORCE_GIBBS = "forceGibbs"; public static final String WEIGHT = "weight"; public String getParserName() { return SWAP_OPERATOR; } public Object parseXMLObject(XMLObject xo) throws XMLParseException { List<Parameter> parameterList = new ArrayList<Parameter>(); for (int i = 0; i < xo.getChildCount(); ++i) { parameterList.add((Parameter) xo.getChild(i)); } double weight = xo.getDoubleAttribute(WEIGHT); boolean forceGibbs = xo.getAttribute(FORCE_GIBBS, false); if (forceGibbs) { return new SwapParameterGibbsOperator(parameterList, weight); } else { return new SwapParameterOperator(parameterList, weight); } } //************************************************************************ // AbstractXMLObjectParser implementation //************************************************************************ public String getParserDescription() { return "This element represents an operator that swaps values in a multi-dimensional parameter."; } public Class getReturnType() { return SwapParameterOperator.class; } public XMLSyntaxRule[] getSyntaxRules() { return rules; } private XMLSyntaxRule[] rules = new XMLSyntaxRule[]{ AttributeRule.newDoubleRule(WEIGHT), AttributeRule.newBooleanRule(FORCE_GIBBS, true), new ElementRule(Parameter.class, 2, Integer.MAX_VALUE) }; }