ScanOneSettingsDialog.java

/*
 * Copyright (c) 2009 The Jackson Laboratory
 * 
 * This software was developed by Gary Churchill's Lab at The Jackson
 * Laboratory (see http://research.jax.org/faculty/churchill).
 *
 * This 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.
 *
 * This software 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 software.  If not, see <http://www.gnu.org/licenses/>.
 */

package org.jax.qtl.scan.gui;

import java.awt.Frame;

import javax.help.CSH;
import javax.help.HelpSet;
import javax.help.SecondaryWindow;

import org.jax.analyticgraph.framework.GraphVisualSettingsPanel;
import org.jax.qtl.QTL;

/**
 * Dialog for scanone settings.
 * @author <A HREF="mailto:keith.sheppard@jax.org">Keith Sheppard</A>
 */
public class ScanOneSettingsDialog extends javax.swing.JDialog
{
    /**
     * every {@link java.io.Serializable} is supposed to have one of these
     */
    private static final long serialVersionUID = -9126226848869336285L;
    
    private static final String HELP_ID_STRING = "One_QTL_Scan_Plot_Settings";
    
    private final ScanOneIntervalPanel scanOneIntervalPanel;

    private final GraphVisualSettingsPanel graphVisualSettingsPanel;
    
    private final ScanOneThresholdPanel scanOneThresholdPanel;
    
    /**
     * Constructor
     * @param parent
     *          the parent for this dialog
     * @param graphToEdit
     *          the graph that we're editing
     */
    public ScanOneSettingsDialog(
            Frame parent,
            ScanOneGraph graphToEdit)
    {
        super(parent, "One QTL Scan Plot Settings", true);
        
        this.scanOneIntervalPanel = new ScanOneIntervalPanel(
                graphToEdit.getScanOneIntervalCommandBuilder());
        this.graphVisualSettingsPanel = new GraphVisualSettingsPanel(graphToEdit);
        
        this.initComponents();
        
        if(graphToEdit.getScanOneResult().getPermutationsWereCalculated())
        {
            this.scanOneThresholdPanel = new ScanOneThresholdPanel(graphToEdit);
            this.mainContentPanel.addTab(
                    "Thresholds",
                    this.scanOneThresholdPanel);
        }
        else
        {
            this.scanOneThresholdPanel = null;
        }
        
        // initialize the help stuff
        HelpSet hs = QTL.getInstance().getMenubar().getHelpSet();
        CSH.setHelpIDString(
                this.helpButton,
                HELP_ID_STRING);
        this.helpButton.addActionListener(
                new CSH.DisplayHelpFromSource(
                        hs,
                        SecondaryWindow.class.getName(),
                        null));
    }
    
    /**
     * This method is called from within the constructor to
     * initialize the form.
     * WARNING: Do NOT modify this code. The content of this method is
     * always regenerated by the Form Editor.
     */
    @SuppressWarnings("all")
    // <editor-fold defaultstate="collapsed" desc="Generated Code">//GEN-BEGIN:initComponents
    private void initComponents() {

        actionPanel = new javax.swing.JPanel();
        closeButton = new javax.swing.JButton();
        helpButton = new javax.swing.JButton();
        mainContentPanel = new javax.swing.JTabbedPane();
        visualSettingsPanelDownCast = this.graphVisualSettingsPanel;
        intervalsPanelDownCast = this.scanOneIntervalPanel;

        setDefaultCloseOperation(javax.swing.WindowConstants.DISPOSE_ON_CLOSE);

        closeButton.setText("Close");
        closeButton.addActionListener(new java.awt.event.ActionListener() {
            public void actionPerformed(java.awt.event.ActionEvent evt) {
                closeButtonActionPerformed(evt);
            }
        });
        actionPanel.add(closeButton);

        helpButton.setIcon(new javax.swing.ImageIcon(getClass().getResource("/images/action/help-16x16.png"))); // NOI18N
        helpButton.setText("Help ...");
        actionPanel.add(helpButton);

        getContentPane().add(actionPanel, java.awt.BorderLayout.SOUTH);

        mainContentPanel.addTab("Labels", visualSettingsPanelDownCast);
        mainContentPanel.addTab("Intervals", intervalsPanelDownCast);

        getContentPane().add(mainContentPanel, java.awt.BorderLayout.CENTER);

        pack();
    }// </editor-fold>//GEN-END:initComponents

    private void closeButtonActionPerformed(java.awt.event.ActionEvent evt) {//GEN-FIRST:event_closeButtonActionPerformed
        this.dispose();
    }//GEN-LAST:event_closeButtonActionPerformed
    
    // Variables declaration - do not modify//GEN-BEGIN:variables
    private javax.swing.JPanel actionPanel;
    private javax.swing.JButton closeButton;
    private javax.swing.JButton helpButton;
    private javax.swing.JPanel intervalsPanelDownCast;
    private javax.swing.JTabbedPane mainContentPanel;
    private javax.swing.JPanel visualSettingsPanelDownCast;
    // End of variables declaration//GEN-END:variables
    
}