TreesTableRecord.java

/*
 * TreesTableRecord.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.app.bss;

import java.io.Serializable;

import dr.evolution.tree.Tree;
import dr.evolution.util.Taxa;

@SuppressWarnings("serial")
public class TreesTableRecord implements Serializable {

	private String name = "";
	private Taxa taxa = null;
	private Tree tree = null;

	private boolean treeSet = false;
	private boolean taxaSet = false;

	public TreesTableRecord() {
	}// END: Constructor

	public TreesTableRecord(String name, Tree tree) {
		this.name = name;
		this.tree = tree;

		treeSet = true;
		applyTreeName();
	}// END: Constructor

	public TreesTableRecord(String name, Taxa taxa) {
		this.name = name;
		this.taxa = taxa;

		taxaSet = true;
		applyTaxaName();
	}// END: Constructor

	private void applyTaxaName() {

		if (taxaSet && name != null) {

			for (int i = 0; i < taxa.getTaxonCount(); i++) {
				taxa.setTaxonAttribute(i, Utils.TREE_FILENAME, name);
			}
		}
	}// END: applyTaxaName

	private void applyTreeName() {

		if (treeSet && name != null) {

			for (int i = 0; i < tree.getTaxonCount(); i++) {
				tree.getTaxon(i).setAttribute(Utils.TREE_FILENAME, name);
			}
		}
	}// END: applyTreeName

	public int getTaxaCount() {

		int taxaCount = 0;

		if (taxaSet) {

			taxaCount = taxa.getTaxonCount();

		} else if (treeSet) {

			taxaCount = tree.getTaxonCount();

		} else {
			// do nothing
		}

		return taxaCount;
	}// END: getTaxaCount

	public String getName() {
		return name;
	}

	public Tree getTree() {
		return tree;
	}

	public Taxa getTaxa() {
		return taxa;
	}

	public String toString() {
		return getName();
	}

	public boolean isTreeSet() {
		return this.treeSet;
	}
	
	public boolean isTaxaSet() {
		return this.taxaSet;
	}
	
}// END: class