package dr.inferencexml.operators; import dr.inference.operators.JointOperator; import dr.inference.operators.SimpleMCMCOperator; import dr.xml.*; /** * */ public class JointOperatorParser extends AbstractXMLObjectParser { public static final String JOINT_OPERATOR = "jointOperator"; public static final String WEIGHT = "weight"; public static final String TARGET_ACCEPTANCE = "targetAcceptance"; public String getParserName() { return JOINT_OPERATOR; } public Object parseXMLObject(XMLObject xo) throws XMLParseException { final double weight = xo.getDoubleAttribute(WEIGHT); final double targetProb = xo.getAttribute(TARGET_ACCEPTANCE, 0.2); if (targetProb <= 0.0 || targetProb >= 1.0) throw new RuntimeException("Target acceptance probability must be between 0.0 and 1.0"); JointOperator operator = new JointOperator(weight, targetProb); for (int i = 0; i < xo.getChildCount(); i++) { operator.addOperator((SimpleMCMCOperator) xo.getChild(i)); } return operator; } //************************************************************************ // AbstractXMLObjectParser implementation //************************************************************************ public String getParserDescription() { return "This element represents an arbitrary list of operators; only the first is optimizable"; } public Class getReturnType() { return JointOperator.class; } public XMLSyntaxRule[] getSyntaxRules() { return rules; } private final XMLSyntaxRule[] rules = { new ElementRule(SimpleMCMCOperator.class, 1, Integer.MAX_VALUE), AttributeRule.newDoubleRule(WEIGHT), AttributeRule.newDoubleRule(TARGET_ACCEPTANCE, true) }; }