/*
* JointParameter.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.inference.model;
import java.util.ArrayList;
/**
* A parameter which controls the values of a set of other parameters
*
* @author Andrew Rambaut
* @version $Id$
*/
public class JointParameter extends Parameter.Abstract implements VariableListener {
public JointParameter(String name, Parameter[] params) {
this(name);
for (Parameter parameter : params) {
addParameter(parameter);
}
}
public JointParameter(String name) {
this.name = name;
dimension = 0;
}
public void addParameter(Parameter param) {
if (dimension == 0) {
dimension = param.getDimension();
} else {
for (int dim = 0; dim < dimension; dim++) {
param.setParameterValue(dim, parameters.get(0).getParameterValue(dim));
}
if (param.getDimension() != dimension) {
throw new RuntimeException("subsequent parameters do not match the dimensionality of the first");
}
}
// AR - I think we ignore the messages from the containing parameters. Possibly would be a good
// idea to check they don't change independently of this one.
// param.addParameterListener(this);
parameters.add(param);
}
/**
* @return name if the parameter has been given a specific name, else it returns getId()
*/
public final String getParameterName() {
if (name != null) return name;
return getId();
}
public int getDimension() {
return dimension;
}
public void setDimension(int dim) {
throw new RuntimeException();
}
public void addBounds(Bounds<Double> bounds) {
throw new RuntimeException("Can't add bounds to a joint parameter, only its components");
}
public Bounds<Double> getBounds() {
return parameters.get(0).getBounds();
}
public void addDimension(int index, double value) {
throw new RuntimeException();
}
public double removeDimension(int index) {
throw new RuntimeException();
}
public double getParameterValue(int dim) {
return parameters.get(0).getParameterValue(dim);
}
public void setParameterValue(int dim, double value) {
for (Parameter parameter : parameters) {
parameter.setParameterValue(dim, value);
}
}
public void setParameterValueQuietly(int dim, double value) {
for (Parameter parameter : parameters) {
parameter.setParameterValueQuietly(dim, value);
}
}
public void setParameterValueNotifyChangedAll(int dim, double value){
for (Parameter parameter : parameters) {
parameter.setParameterValueNotifyChangedAll(dim, value);
}
}
protected void storeValues() {
for (Parameter parameter : parameters) {
parameter.storeParameterValues();
}
}
protected void restoreValues() {
for (Parameter parameter : parameters) {
parameter.restoreParameterValues();
}
}
protected final void acceptValues() {
for (Parameter parameter : parameters) {
parameter.acceptParameterValues();
}
}
protected final void adoptValues(Parameter source) {
// the parameters that make up a compound parameter will have
// this function called on them individually so we don't need
// to do anything here.
}
public String toString() {
StringBuffer buffer = new StringBuffer(String.valueOf(getParameterValue(0)));
final Bounds bounds = getBounds();
buffer.append("[").append(String.valueOf(bounds.getLowerLimit(0)));
buffer.append(",").append(String.valueOf(bounds.getUpperLimit(0))).append("]");
for (int i = 1; i < getDimension(); i++) {
buffer.append(", ").append(String.valueOf(getParameterValue(i)));
buffer.append("[").append(String.valueOf(bounds.getLowerLimit(i)));
buffer.append(",").append(String.valueOf(bounds.getUpperLimit(i))).append("]");
}
return buffer.toString();
}
// ****************************************************************
// Parameter listener interface
// ****************************************************************
public void variableChangedEvent(Variable variable, int index, ChangeType type) {
if (variable.getSize() > 1) {
fireParameterChangedEvent(index, type);
} else {
fireParameterChangedEvent();
}
}
private final ArrayList<Parameter> parameters = new ArrayList<Parameter>();
private int dimension;
private String name;
}