/* * AlloppMoveLegsParser.java * * Copyright (c) 2002-2017 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.evomodel.alloppnet.parsers; import dr.evomodel.alloppnet.operators.AlloppMoveLegs; import dr.evomodel.alloppnet.speciation.AlloppSpeciesBindings; import dr.evomodel.alloppnet.speciation.AlloppSpeciesNetworkModel; import dr.inference.operators.MCMCOperator; import dr.xml.AbstractXMLObjectParser; import dr.xml.AttributeRule; import dr.xml.ElementRule; import dr.xml.XMLObject; import dr.xml.XMLParseException; import dr.xml.XMLSyntaxRule; /** * * @author Graham Jones * Date: 31/08/2011 */ public class AlloppMoveLegsParser extends AbstractXMLObjectParser { public static final String MOVE_LEGS = "moveLegs"; public String getParserName() { return MOVE_LEGS; } @Override public Object parseXMLObject(XMLObject xo) throws XMLParseException { AlloppSpeciesBindings apsp = (AlloppSpeciesBindings) xo.getChild(AlloppSpeciesBindings.class); AlloppSpeciesNetworkModel apspnet = (AlloppSpeciesNetworkModel) xo.getChild(AlloppSpeciesNetworkModel.class); final double weight = xo.getDoubleAttribute(MCMCOperator.WEIGHT); return new AlloppMoveLegs(apspnet, apsp, weight); } @Override public XMLSyntaxRule[] getSyntaxRules() { return new XMLSyntaxRule[]{ AttributeRule.newDoubleRule(MCMCOperator.WEIGHT), new ElementRule(AlloppSpeciesBindings.class), new ElementRule(AlloppSpeciesNetworkModel.class) }; } @Override public String getParserDescription() { return "Operator which changes the way a tetraploid subtree joins the diploid tree."; } @Override public Class getReturnType() { return AlloppMoveLegs.class; } }