/*
* Jalview - A Sequence Alignment Editor and Viewer
* Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
*
* 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., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
*/

package jalview.appletgui;

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

public class FeatureRenderer
{
  AlignViewport av;

  SequenceGroup currentSequenceGroup = null;
  SequenceGroup [] allGroups = null;
  Color resBoxColour;
  Graphics graphics;

  public FeatureRenderer(AlignViewport av)
  {
    this.av = av;
  }


  public void drawSequence(Graphics g,SequenceI seq,SequenceGroup [] sg, int start, int end, int x1, int y1, int width, int height)
  {
    Vector features = seq.getSequenceFeatures();
    Enumeration e = features.elements();
    while( e.hasMoreElements() )
    {
      SequenceFeature sf = (SequenceFeature)e.nextElement();
      if(sf.getStart()>seq.getEnd())
        continue;

      int fstart = seq.findIndex(sf.getStart())-1;
      int fend = seq.findIndex(sf.getEnd())-1;

      if(   (fstart<=end && fend>=start)  )
      {
        if(fstart<0) // fix for if the feature we have starts before the sequence start,
          fstart = 0;// but the feature end is still valid!!

        if(fstart==fend)
        {
          g.setColor(Color.red);
          g.fillRoundRect( (fstart - start) * width, y1, width, height, 4,4);
          g.setColor(Color.white);

          char s = seq.getSequence().charAt(fstart);
          FontMetrics fm = g.getFontMetrics();
          int charOffset =  (width - fm.charWidth(s))/2;
          int pady = height/5;
          g.drawString(String.valueOf(s), charOffset + x1 + width * (fstart - start), y1 + height - pady);

        }
        else
        {
          for (int i = fstart; i <= fend; i++)
          {
            char s = seq.getSequence().charAt(i);
            if( jalview.util.Comparison.isGap(s) )
              continue;

            g.setColor(Color.blue);
            g.fillRect( (i-start) * width, y1, width, height);

            g.setColor(Color.white);

            FontMetrics fm = g.getFontMetrics();
            int charOffset = (width - fm.charWidth(s)) / 2;
            int pady = height / 5;
            g.drawString(String.valueOf(s),
                         charOffset + x1 + width * (i-start),
                         y1 + height - pady);
          }
        }
      }

    }
   }

}