EigenSystem.java

/*
 * EigenSystem.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.substmodel;

import java.io.Serializable;

/**
 * @author Andrew Rambaut
 * @author Marc Suchard
 * @version $Id$
 */
public interface EigenSystem extends Serializable {
    /**
     * Set the instantaneous rate matrix
     *
     * @param matrix
     */
    EigenDecomposition decomposeMatrix(double[][] matrix);

    void computeExponential(EigenDecomposition ed, double time, double[] matrix);

    double computeExponential(EigenDecomposition ed, double time, int i, int j);
}