/*
 * 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 java.awt.*;
import java.awt.event.*;

import jalview.datamodel.*;

public class IdPanel
    extends Panel implements MouseListener, MouseMotionListener
{

  protected IdCanvas idCanvas;
  protected AlignViewport av;
  protected AlignmentPanel alignPanel;
  ScrollThread scrollThread = null;

  int offy;
  int width;
  int lastid = -1;
  boolean mouseDragging = false;
  java.util.Vector links = new java.util.Vector();

  public IdPanel(AlignViewport av, AlignmentPanel parent)
  {
    this.av = av;
    alignPanel = parent;
    idCanvas = new IdCanvas(av);
    setLayout(new BorderLayout());
    add(idCanvas, BorderLayout.CENTER);
    idCanvas.addMouseListener(this);
    idCanvas.addMouseMotionListener(this);

    String label, url;
    if(parent.alignFrame.applet!=null)
    {
      for (int i = 1; i < 10; i++)
      {
        label = parent.alignFrame.applet.getParameter("linkLabel_" + i);
        url = parent.alignFrame.applet.getParameter("linkURL_" + i);

        if (label != null && url != null)
          links.addElement(label + "|" + url);

      }
    }
    if (links.size() < 1)
    {
      links = new java.util.Vector();
      links.addElement("SRS|http://srs.ebi.ac.uk/srs7bin/cgi-bin/wgetz?-e+[uniprot-all:$SEQUENCE_ID$]+-vn+2");
    }
  }

  public void mouseMoved(MouseEvent e)
  {}

  public void mouseDragged(MouseEvent e)
  {
    mouseDragging = true;

    int y = e.getY();
    if (av.getWrapAlignment())
    {
      y -= 2 * av.charHeight;
    }
    int seq = av.getIndex(y);

    if (seq < 0)
    {
      return;
    }

    if (seq < lastid)
    {
      selectSeqs(lastid - 1, seq);
    }
    else if (seq > lastid)
    {
      selectSeqs(lastid + 1, seq);
    }

    lastid = seq;
    alignPanel.repaint();
  }

  public void mouseClicked(MouseEvent e)
  {
    if (e.getClickCount() < 2)
        return;

    int y = e.getY();

    if (av.getWrapAlignment())
    {
      y -= (2 * av.charHeight);
    }

    //DEFAULT LINK IS FIRST IN THE LINK LIST
    int seq = av.getIndex(y);
    String id = av.getAlignment().getSequenceAt(seq).getName();
    if (id.indexOf("|") > -1)
        id = id.substring(id.lastIndexOf("|") + 1);

    String target = links.elementAt(0).toString();
    target = target.substring(0, target.indexOf("|"));
    String url = links.elementAt(0).toString();
    url = url.substring(url.indexOf("|")+1);

    int index = url.indexOf("$SEQUENCE_ID$");
    url = url.substring(0, index)+ id + url.substring(index+13);

    try
    {

      alignPanel.alignFrame.showURL(url, target);
    }
    catch (Exception ex)
    {
      ex.printStackTrace();
    }
  }

  public void mouseEntered(MouseEvent e)
  {
    if (scrollThread != null)
    {
      scrollThread.running = false;
    }
  }

  public void mouseExited(MouseEvent e)
  {
    if (av.getWrapAlignment())
    {
      return;
    }

    if (mouseDragging && e.getY() < 0 && av.getStartSeq() > 0)
    {
      scrollThread = new ScrollThread(true);
    }

    if (mouseDragging && e.getY() >= getSize().height &&
        av.alignment.getHeight() > av.getEndSeq())
    {
      scrollThread = new ScrollThread(false);
    }
  }

  public void mousePressed(MouseEvent e)
  {
    if (e.getClickCount() >1 )
    {
      return;
    }

    int y = e.getY();
    if (av.getWrapAlignment())
    {
      y -= 2 * av.charHeight;
    }

    int seq = av.getIndex(y);
    if (seq == -1)
    {
      return;
    }

    if ( (e.getModifiers() & InputEvent.BUTTON3_MASK) ==
        InputEvent.BUTTON3_MASK)
    {
      APopupMenu popup = new APopupMenu(alignPanel, (Sequence) av.getAlignment().getSequenceAt(seq), links);
      this.add(popup);
      popup.show(this, e.getX(), e.getY());
      return;
    }

    if (!e.isControlDown() && !e.isShiftDown() &&
        av.alignment.findGroup(av.alignment.getSequenceAt(seq)) != null)
    {

      SequenceGroup selection = new SequenceGroup();
      SequenceGroup sg = av.alignment.findGroup(av.alignment.getSequenceAt(seq));
      selection.setStartRes(0);
      selection.setEndRes(av.alignment.getWidth() - 1);
      for (int i = 0; i < sg.getSize(); i++)
      {
        selection.addSequence(sg.getSequenceAt(i), true);
      }

      av.setSelectionGroup(selection);
      return;
    }

    if (av.getSelectionGroup() == null ||
        (!e.isControlDown() && av.getSelectionGroup() != null))
    {
      av.setSelectionGroup(new SequenceGroup());
    }

    av.getSelectionGroup().setStartRes(0);
    av.getSelectionGroup().setEndRes(av.alignment.getWidth() - 1);

    if (e.isShiftDown() && lastid != -1)
    {
      selectSeqs(lastid, seq);
    }
    else
    {
      selectSeq(seq);
    }

    alignPanel.repaint();
  }

  void selectSeq(int seq)
  {
    lastid = seq;
    SequenceI pickedSeq = av.getAlignment().getSequenceAt(seq);
    av.getSelectionGroup().addOrRemove(pickedSeq, false);
  }

  void selectSeqs(int start, int end)
  {

    lastid = start;
    if (end < start)
    {
      int tmp = start;
      start = end;
      end = tmp;
      lastid = end;
    }

    for (int i = start; i <= end; i++)
    {
      av.getSelectionGroup().addSequence(av.getAlignment().getSequenceAt(i), false);
    }

  }

  public void mouseReleased(MouseEvent e)
  {
    if (scrollThread != null)
    {
      scrollThread.running = false;
    }

    if(av.getSelectionGroup()!=null)
      av.getSelectionGroup().recalcConservation();

    mouseDragging = false;
    PaintRefresher.Refresh(this, av.alignment);
  }

  public void highlightSearchResults(java.util.Vector found)
  {
    idCanvas.setHighlighted(found);

    if (found == null)
    {
      return;
    }

    int index = av.alignment.findIndex( (SequenceI) found.elementAt(0));

    // do we need to scroll the panel?
    if (av.getStartSeq() > index || av.getEndSeq() < index)
    {
      alignPanel.setScrollValues(av.getStartRes(), index);
    }
  }

  // this class allows scrolling off the bottom of the visible alignment
  class ScrollThread
      extends Thread
  {
    boolean running = false;
    boolean up = true;
    public ScrollThread(boolean up)
    {
      this.up = up;
      start();
    }

    public void stopScrolling()
    {
      running = false;
    }

    public void run()
    {
      running = true;
      while (running)
      {
        if (alignPanel.scrollUp(up))
        {
          // scroll was ok, so add new sequence to selection
          int seq = av.getStartSeq();
          if (!up)
          {
            seq = av.getEndSeq();
          }

          if (seq < lastid)
          {
            selectSeqs(lastid - 1, seq);
          }
          else if (seq > lastid)
          {
            selectSeqs(lastid + 1, seq);
          }

          lastid = seq;
        }
        else
        {
          running = false;
        }

        alignPanel.repaint();
        try
        {
          Thread.sleep(100);
        }
        catch (Exception ex)
        {}
      }
    }
  }

}