/* Jalview - a java multiple alignment editor
 * Copyright (C) 1998  Michele Clamp
 *
 * This program is free software; you can redistribute it and/or
 * modify it under the terms of the GNU General Public License
 * as published by the Free Software Foundation; either version 2
 * of the License, or (at your option) any later version.
 *
 * This program 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 General Public License for more details.
 *
 * You should have received a copy of the GNU General Public License
 * along with this program; if not, write to the Free Software
 * Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA  02111-1307, USA.
 */

package jalview.schemes;
import java.awt.*;
import jalview.gui.*;
import jalview.datamodel.*;
import jalview.analysis.*;

public class ConservationColourScheme extends ResidueColourScheme {
  public Conservation conserve;
  public ColourSchemeI cs;
  public int inc = 30;
  int colourThreshold =  7;

  public ConservationColourScheme(Conservation cons, ColourSchemeI oldcs)
  {
    super();
    conserve = cons;
    cs = oldcs;

  }


   public Color findColour(String s, int i, java.util.Vector v)
   {
     Color c = Color.white;
     if(cs == null)
       return c;

     if (colourThreshold > 0 && conserve.getConsSequence() != null)
     {
       if (conserve.getConsSequence().getSequence().charAt(i) == '*'
           || conserve.getConsSequence().getSequence().charAt(i) == '+')
       {
           c = cs.findColour(s, i, v);
       }
       else
       {
           int tmp = 10;
           int t = 0;
           if (!jalview.util.Comparison.isGap(conserve.getConsSequence().
                                              getSequence().charAt(i)))
             t = Integer.parseInt(conserve.getConsSequence().getSequence().
                                  substring(i, i + 1));

           c = cs.findColour(s, i, v);
           while (tmp >= t)
           {
             c = lighter(c, inc);
             tmp--;
           }
       }
     }
     return c;
   }


  public Color lighter(Color c, int inc) {
    int red = c.getRed();
    int blue = c.getBlue();
    int green = c.getGreen();

    if (red < 255-inc) { red = red +inc;} else {red = 255;}
    if (blue < 255-inc) { blue = blue +inc;} else {blue = 255;}
    if (green < 255-inc) { green = green +inc;} else {green = 255;}

    return new Color(red,green,blue);
  }

}