/*
* RLTVLogger.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.evomodel.tree.randomlocalmodel;
import dr.evolution.tree.NodeRef;
import dr.evomodel.tree.TreeModel;
import dr.inference.loggers.LogFormatter;
import dr.inference.loggers.MCLogger;
/**
* A logger for a random local tree variable.
* It logs only the selected parameters in pairs of node number, variable value
*
* @author Andrew Rambaut
* @author Alexei Drummond
* @version $Id: TreeLogger.java,v 1.25 2006/09/05 13:29:34 rambaut Exp $
*/
public class RLTVLogger extends MCLogger {
private TreeModel treeModel;
private RandomLocalTreeVariable randomLocal;
public RLTVLogger(LogFormatter formatter,
int logEvery, TreeModel treeModel,
RandomLocalTreeVariable randomLocal) {
super(formatter, logEvery, false);
this.treeModel = treeModel;
this.randomLocal = randomLocal;
}
public void startLogging() {
logLine("State\tRate changes");
}
public void log(long state) {
if (logEvery <= 0 || ((state % logEvery) == 0)) {
int nodeCount = treeModel.getNodeCount();
StringBuilder builder = new StringBuilder();
builder.append(state);
for (int i = 0; i < nodeCount; i++) {
NodeRef node = treeModel.getNode(i);
if (randomLocal.isVariableSelected(treeModel, node)) {
builder.append("\t");
builder.append(node.getNumber());
builder.append("\t");
builder.append(randomLocal.getVariable(treeModel, node));
}
}
logLine(builder.toString());
}
}
public void stopLogging() {
super.stopLogging();
}
}