/*
* AminoAcidDecorator.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.beauti.alignmentviewer;
import jebl.evolution.sequences.AminoAcids;
import java.awt.*;
/**
* @author Andrew Rambaut
* @version $Id: AminoAcidDecorator.java,v 1.1 2005/11/11 16:40:41 rambaut Exp $
*/
public class AminoAcidDecorator implements StateDecorator {
Paint[] paints = new Paint[AminoAcids.getStateCount()];
public AminoAcidDecorator() {
paints[AminoAcids.A_STATE.getIndex()] = new Color(204, 255, 255);
paints[AminoAcids.C_STATE.getIndex()] = new Color(0, 255, 255);
paints[AminoAcids.D_STATE.getIndex()] = new Color(255, 204, 153);
paints[AminoAcids.E_STATE.getIndex()] = new Color(255, 204, 0);
paints[AminoAcids.F_STATE.getIndex()] = new Color(0, 204, 255);
paints[AminoAcids.G_STATE.getIndex()] = new Color(0, 255, 0);
paints[AminoAcids.H_STATE.getIndex()] = new Color(255, 255, 153);
paints[AminoAcids.I_STATE.getIndex()] = new Color(0, 0, 128);
paints[AminoAcids.K_STATE.getIndex()] = new Color(198, 66, 0);
paints[AminoAcids.L_STATE.getIndex()] = new Color(51, 102, 255);
paints[AminoAcids.M_STATE.getIndex()] = new Color(153, 204, 255);
paints[AminoAcids.N_STATE.getIndex()] = new Color(255, 153, 0);
paints[AminoAcids.P_STATE.getIndex()] = new Color(255, 255, 0);
paints[AminoAcids.Q_STATE.getIndex()] = new Color(255, 102, 0);
paints[AminoAcids.R_STATE.getIndex()] = new Color(230, 6, 6);
paints[AminoAcids.S_STATE.getIndex()] = new Color(204, 255, 153);
paints[AminoAcids.T_STATE.getIndex()] = new Color(0, 255, 153);
paints[AminoAcids.V_STATE.getIndex()] = new Color(0, 0, 255);
paints[AminoAcids.W_STATE.getIndex()] = new Color(204, 153, 255);
paints[AminoAcids.Y_STATE.getIndex()] = new Color(204, 255, 204);
paints[AminoAcids.B_STATE.getIndex()] = Color.DARK_GRAY;
paints[AminoAcids.Z_STATE.getIndex()] = Color.DARK_GRAY;
paints[AminoAcids.X_STATE.getIndex()] = Color.GRAY;
paints[AminoAcids.UNKNOWN_STATE.getIndex()] = Color.GRAY;
paints[AminoAcids.STOP_STATE.getIndex()] = Color.GRAY;
paints[AminoAcids.GAP_STATE.getIndex()] = Color.GRAY;
};
public Paint getStatePaint(int stateIndex) {
return paints[stateIndex];
}
}