package jalview.schemes;

import jalview.datamodel.*;
import java.util.*;
import java.awt.*;

public class PIDColourScheme extends ResidueColourScheme {
    public Color[] pidColours;
    public float[] thresholds;

    SequenceGroup group;

    public PIDColourScheme() {
	this.pidColours = ResidueProperties.pidColours;
	this.thresholds = ResidueProperties.pidThresholds;
    }


  public Color findColour(String s, int j,Vector aa) {
      Color     c    = Color.white;
      Hashtable hash = null;


      if (aa != null)
	  hash = (Hashtable)aa.elementAt(j);
      else
        return c;

      String    max  = (String)hash.get("maxResidue");

      double sc = 0;
      if ( Integer.parseInt( hash.get("maxCount").toString() ) != -1 && hash.contains(s))
      {
        sc = ( (Integer) hash.get(s)).intValue() * 100.0 / ((Integer)hash.get("size")).intValue() ;
        // MC Should be isGap
        if (!jalview.util.Comparison.isGap((s.charAt(0))))
        {
          for (int i = 0; i < thresholds.length; i++)
          {
            if (sc > thresholds[i])
            {
              c = pidColours[i];
              break;
            }
          }
        }

      }
      return c;
  }
}