/* * UniformOperatorParser.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.MCMCOperator; import dr.inference.operators.UniformOperator; import dr.xml.*; /** */ public class UniformOperatorParser extends AbstractXMLObjectParser { public final static String UNIFORM_OPERATOR = "uniformOperator"; public static final String LOWER = "lower"; public static final String UPPER = "upper"; public String getParserName() { return UNIFORM_OPERATOR; } public Object parseXMLObject(XMLObject xo) throws XMLParseException { double weight = xo.getDoubleAttribute(MCMCOperator.WEIGHT); Parameter parameter = (Parameter) xo.getChild(Parameter.class); if( parameter.getDimension() == 0 ) { throw new XMLParseException("parameter with 0 dimension."); } Double lower = null; Double upper = null; if (xo.hasAttribute(LOWER)) { lower = xo.getDoubleAttribute(LOWER); } if (xo.hasAttribute(UPPER)) { upper = xo.getDoubleAttribute(UPPER); } return new UniformOperator(parameter, weight, lower, upper); } //************************************************************************ // AbstractXMLObjectParser implementation //************************************************************************ public String getParserDescription() { return "An operator that picks new parameter values uniformly at random."; } public Class getReturnType() { return UniformOperator.class; } public XMLSyntaxRule[] getSyntaxRules() { return rules; } private final XMLSyntaxRule[] rules = { AttributeRule.newDoubleRule(MCMCOperator.WEIGHT), AttributeRule.newDoubleRule(LOWER, true), AttributeRule.newDoubleRule(UPPER, true), new ElementRule(Parameter.class) }; }