/*
 * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
 * Copyright (C) $$Year-Rel$$ The Jalview Authors
 * 
 * This file is part of Jalview.
 * 
 * Jalview 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 3
 * of the License, or (at your option) any later version.
 *  
 * Jalview 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 Jalview.  If not, see <http://www.gnu.org/licenses/>.
 * The Jalview Authors are detailed in the 'AUTHORS' file.
 */
package jalview.gui;

import jalview.analysis.NJTree;
import jalview.analysis.scoremodels.ScoreModels;
import jalview.api.analysis.ScoreModelI;
import jalview.util.MessageManager;

import java.awt.Color;
import java.awt.FlowLayout;
import java.awt.Font;
import java.awt.event.ActionEvent;

import javax.swing.ButtonGroup;
import javax.swing.JButton;
import javax.swing.JComboBox;
import javax.swing.JInternalFrame;
import javax.swing.JLayeredPane;
import javax.swing.JPanel;
import javax.swing.JRadioButton;

/**
 * A dialog to allow a user to select and action Tree calculation options
 */
public class TreeChooser extends JPanel
{
  private static final Font VERDANA_11PT = new Font("Verdana", 0, 11);

  AlignFrame af;

  JRadioButton neighbourJoining;

  JRadioButton averageDistance;

  JComboBox<String> matrixNames;

  private JInternalFrame frame;

  private ButtonGroup treeTypes;

  /**
   * Constructor
   * 
   * @param af
   */
  public TreeChooser(AlignFrame alignFrame)
  {
    this.af = alignFrame;
    init();
  }

  void init()
  {
    frame = new JInternalFrame();
    frame.setContentPane(this);
    this.setBackground(Color.white);

    neighbourJoining = new JRadioButton(
            MessageManager.getString("label.tree_calc_nj"));
    neighbourJoining.setOpaque(false);
    averageDistance = new JRadioButton(
            MessageManager.getString("label.tree_calc_av"));
    treeTypes = new ButtonGroup();
    treeTypes.add(neighbourJoining);
    treeTypes.add(averageDistance);
    neighbourJoining.setSelected(true);

    matrixNames = new JComboBox<String>();
    ScoreModels scoreModels = ScoreModels.getInstance();
    for (ScoreModelI sm : scoreModels.getModels())
    {
      boolean nucleotide = af.getViewport().getAlignment().isNucleotide();
      if (sm.isDNA() && nucleotide || sm.isProtein() && !nucleotide)
      {
        matrixNames.addItem(sm.getName());
      }
    }

    JButton ok = new JButton(MessageManager.getString("action.ok"));
    ok.setFont(VERDANA_11PT);
    ok.addActionListener(new java.awt.event.ActionListener()
    {
      @Override
      public void actionPerformed(ActionEvent e)
      {
        ok_actionPerformed(e);
      }
    });

    JButton cancel = new JButton(MessageManager.getString("action.cancel"));
    cancel.setFont(VERDANA_11PT);
    cancel.addActionListener(new java.awt.event.ActionListener()
    {
      @Override
      public void actionPerformed(ActionEvent e)
      {
        cancel_actionPerformed(e);
      }
    });

    JPanel p1 = new JPanel();
    p1.setOpaque(false);
    p1.add(neighbourJoining);
    p1.add(averageDistance);
    this.add(p1);
    JPanel p2 = new JPanel(new FlowLayout(FlowLayout.LEFT));
    p2.setOpaque(false);
    p2.add(matrixNames, FlowLayout.LEFT);
    this.add(p2);
    JPanel p3 = new JPanel();
    p3.setOpaque(false);
    p3.add(ok);
    p3.add(cancel);
    this.add(p3);

    Desktop.addInternalFrame(frame,
            MessageManager.getString("label.choose_tree"),
              400, 200, false);

    frame.setLayer(JLayeredPane.PALETTE_LAYER);
  }

  /**
   * Open and calculate the selected tree on 'OK'
   * 
   * @param e
   */
  protected void ok_actionPerformed(ActionEvent e)
  {
    try
    {
      frame.setClosed(true);
      String treeType = neighbourJoining.isSelected() ? NJTree.NEIGHBOUR_JOINING
              : NJTree.AVERAGE_DISTANCE;
      ScoreModelI sm = ScoreModels.getInstance().forName(
              matrixNames.getSelectedItem().toString());
      af.newTreePanel(treeType, sm);
    } catch (Exception ex)
    {
    }
  }

  /**
   * Closes dialog on cancel
   * 
   * @param e
   */
  protected void cancel_actionPerformed(ActionEvent e)
  {
    try
    {
      frame.setClosed(true);
    } catch (Exception ex)
    {
    }
  }
}