/*
* CenteredScaleOperatorParser.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.CenteredScaleOperator;
import dr.inference.operators.CoercableMCMCOperator;
import dr.inference.operators.CoercionMode;
import dr.inference.operators.MCMCOperator;
import dr.xml.*;
/**
*/
public class CenteredScaleOperatorParser extends AbstractXMLObjectParser {
public static final String CENTERED_SCALE = "centeredScale";
public static final String SCALE_FACTOR = "scaleFactor";
public String getParserName() {
return CENTERED_SCALE;
}
public Object parseXMLObject(XMLObject xo) throws XMLParseException {
Parameter parameter = (Parameter) xo.getChild(Parameter.class);
double scale = xo.getDoubleAttribute(SCALE_FACTOR);
double weight = xo.getDoubleAttribute(MCMCOperator.WEIGHT);
CenteredScaleOperator op = new CenteredScaleOperator(parameter);
op.setWeight(weight);
op.scaleFactor = scale;
op.mode = CoercionMode.parseMode(xo);
return op;
}
public String getParserDescription() {
return "A centered-scale operator. This operator scales the the values of a multi-dimensional parameter so as to perserve the mean. It does this by expanding or conrtacting the parameter values around the mean.";
}
public Class getReturnType() {
return CenteredScaleOperator.class;
}
public XMLSyntaxRule[] getSyntaxRules() {
return rules;
}
private XMLSyntaxRule[] rules = new XMLSyntaxRule[]{
AttributeRule.newDoubleRule(MCMCOperator.WEIGHT),
AttributeRule.newDoubleRule(SCALE_FACTOR),
AttributeRule.newBooleanRule(CoercableMCMCOperator.AUTO_OPTIMIZE, true),
new ElementRule(Parameter.class)
};
}