/*****************************************************************************
 * Copyright by The HDF Group.                                               *
 * Copyright by the Board of Trustees of the University of Illinois.         *
 * All rights reserved.                                                      *
 *                                                                           *
 * This file is part of the HDF Java Products distribution.                  *
 * The full copyright notice, including terms governing use, modification,   *
 * and redistribution, is contained in the files COPYING and Copyright.html. *
 * COPYING can be found at the root of the source code distribution tree.    *
 * Or, see https://support.hdfgroup.org/products/licenses.html               *
 * If you do not have access to either file, you may request a copy from     *
 * help@hdfgroup.org.                                                        *
 ****************************************************************************/

package hdf.view;

import java.io.BufferedInputStream;
import java.io.BufferedOutputStream;
import java.io.File;
import java.io.FileOutputStream;
import java.net.URL;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.Enumeration;
import java.util.Iterator;
import java.util.List;
import java.util.Vector;

import org.eclipse.jface.preference.PreferenceManager;
import org.eclipse.swt.SWT;
import org.eclipse.swt.custom.SashForm;
import org.eclipse.swt.custom.ScrolledComposite;
import org.eclipse.swt.dnd.DND;
import org.eclipse.swt.dnd.DropTarget;
import org.eclipse.swt.dnd.DropTargetEvent;
import org.eclipse.swt.dnd.DropTargetListener;
import org.eclipse.swt.dnd.FileTransfer;
import org.eclipse.swt.dnd.Transfer;
import org.eclipse.swt.events.DisposeEvent;
import org.eclipse.swt.events.DisposeListener;
import org.eclipse.swt.events.KeyAdapter;
import org.eclipse.swt.events.KeyEvent;
import org.eclipse.swt.events.SelectionAdapter;
import org.eclipse.swt.events.SelectionEvent;
import org.eclipse.swt.graphics.Font;
import org.eclipse.swt.graphics.Image;
import org.eclipse.swt.graphics.Point;
import org.eclipse.swt.graphics.Rectangle;
import org.eclipse.swt.layout.FillLayout;
import org.eclipse.swt.layout.GridData;
import org.eclipse.swt.layout.GridLayout;
import org.eclipse.swt.layout.RowLayout;
import org.eclipse.swt.widgets.Button;
import org.eclipse.swt.widgets.Combo;
import org.eclipse.swt.widgets.Composite;
import org.eclipse.swt.widgets.Control;
import org.eclipse.swt.widgets.Dialog;
import org.eclipse.swt.widgets.Display;
import org.eclipse.swt.widgets.Event;
import org.eclipse.swt.widgets.FileDialog;
import org.eclipse.swt.widgets.Label;
import org.eclipse.swt.widgets.Listener;
import org.eclipse.swt.widgets.Menu;
import org.eclipse.swt.widgets.MenuItem;
import org.eclipse.swt.widgets.Monitor;
import org.eclipse.swt.widgets.Shell;
import org.eclipse.swt.widgets.Text;
import org.eclipse.swt.widgets.ToolBar;
import org.eclipse.swt.widgets.ToolItem;

import hdf.HDFVersions;
import hdf.object.FileFormat;
import hdf.object.HObject;
import hdf.view.ViewProperties.DataViewType;
import hdf.view.HelpView.HelpView;
import hdf.view.MetaDataView.MetaDataView;
import hdf.view.TableView.TableView;
import hdf.view.TreeView.DefaultTreeView;
import hdf.view.TreeView.TreeView;
import hdf.view.dialog.ImageConversionDialog;
import hdf.view.dialog.InputDialog;
import hdf.view.dialog.UserOptionsDialog;
import hdf.view.dialog.UserOptionsGeneralPage;
import hdf.view.dialog.UserOptionsHDFPage;
import hdf.view.dialog.UserOptionsNode;


/**
 * HDFView is the main class of this HDF visual tool. It is used to layout the
 * graphical components of the hdfview. The major GUI components of the HDFView
 * include Menubar, Toolbar, TreeView, ContentView, and MessageArea.
 * <p>
 * The HDFView is designed in such a way that it does not have direct access to
 * the HDF library. All the HDF library access is done through HDF objects.
 * Therefore, the HDFView package depends on the object package but not the
 * library package. The source code of the view package (hdf.view) should
 * be compiled with the library package (hdf.hdflib and hdf.hdf5lib).
 *
 * @author Jordan T. Henderson
 * @version 2.4 //2015
 */
public class HDFView implements ViewManager {

    private final static org.slf4j.Logger log = org.slf4j.LoggerFactory.getLogger(HDFView.class);

    private static Display             display;
    private static Shell               mainWindow;

    /* Determines whether HDFView is being executed for GUI testing */
    private boolean                    isTesting = false;

    /* The directory where HDFView is installed */
    private String                     rootDir;

    /* The current working directory */
    private String                     currentDir;

    /* The current working file */
    private String                     currentFile = null;

    /* The view properties */
    private ViewProperties             props;

    /* A list of tree view implementations. */
    private static List<String>        treeViews;

    /* A list of image view implementations. */
    private static List<String>        imageViews;

    /* A list of tree table implementations. */
    private static List<?>             tableViews;

    /* A list of metadata view implementations. */
    private static List<?>             metaDataViews;

    /* A list of palette view implementations. */
    private static List<?>             paletteViews;

    /* A list of help view implementations. */
    private static List<?>             helpViews;

    /* The list of GUI components related to HDF4 */
    private final List<MenuItem>       h4GUIs = new Vector<>();

    /* The list of GUI components related to HDF5 */
    private final List<MenuItem>       h5GUIs = new Vector<>();

    /* The list of GUI components related to editing */
    //private final List<?>            editGUIs;

    /* GUI component: the TreeView */
    private TreeView                   treeView = null;

    private static final String        HDF4_VERSION = HDFVersions.HDF4_VERSION;
    private static final String        HDF5_VERSION = HDFVersions.HDF5_VERSION;
    private static final String        HDFVIEW_VERSION = HDFVersions.HDFVIEW_VERSION;
    private static final String        HDFVIEW_USERSGUIDE_URL = "https://support.hdfgroup.org/products/java/hdfview/index.html";
    private static final String        JAVA_COMPILER = "jdk 1.7";
    private static final String        JAVA_VER_INFO = "Compiled at " + JAVA_COMPILER + "\nRunning at " + System.getProperty("java.version");

    private static final String        aboutHDFView = "HDF Viewer, " + "Version " + ViewProperties.VERSION + "\n"
            + "For " + System.getProperty("os.name") + "\n\n"
            + "Copyright " + '\u00a9' + " 2006-2017 The HDF Group.\n"
            + "All rights reserved.";

    /* GUI component: The toolbar for open, close, help and hdf4 and hdf5 library information */
    private ToolBar                    toolBar;

    /* GUI component: The text area for showing status messages */
    private Text                       status;

    /* GUI component: The area for quick general view */
    private ScrolledComposite          generalArea;

    /* GUI component: To add and display URLs */
    private Combo                      url_bar;

    private Button                     recentFilesButton;
    private Button                     clearTextButton;

    /* GUI component: A list of current data windows */
    private Menu                       windowMenu;

    /* GUI component: File menu on the menubar */
    //private final Menu               fileMenu;

    /* The font to be used for display text on all Controls */
    private Font                       currentFont;

    private UserOptionsDialog          userOptionDialog;

    /**
     * Constructs HDFView with a given root directory, where the HDFView is
     * installed, and opens the given files in the viewer.
     *
     * @param root
     *            the directory where the HDFView is installed.
     */
    public HDFView(String root) {
        log.debug("Root is {}", root);

        if (display == null || display.isDisposed()) display = new Display();

        rootDir = root;

        //editGUIs = new Vector<Object>();

        props = new ViewProperties(rootDir);
        try {
            props.load();
        }
        catch (Exception ex) {
            log.debug("Failed to load View Properties from {}", rootDir);
        }

        ViewProperties.loadIcons();

        currentDir = ViewProperties.getWorkDir();
        if (currentDir == null) currentDir = System.getProperty("user.home");

        log.info("Current directory is {}", currentDir);

        try {
            currentFont = new Font(
                    display,
                    ViewProperties.getFontType(),
                    ViewProperties.getFontSize(),
                    SWT.NORMAL);
        }
        catch (Exception ex) {
            currentFont = null;
        }

        treeViews = ViewProperties.getTreeViewList();
        metaDataViews = ViewProperties.getMetaDataViewList();
        tableViews = ViewProperties.getTableViewList();
        imageViews = ViewProperties.getImageViewList();
        paletteViews = ViewProperties.getPaletteViewList();
        helpViews = ViewProperties.getHelpViewList();

        log.debug("Constructor exit");
    }


    /**
     * Creates HDFView with a given size, and opens the given files in the viewer.
     *
     * @param flist
     *            a list of files to open.
     * @param width
     *            the width of the app in pixels
     * @param height
     *            the height of the app in pixels
     * @param x
     *            the coord x of the app in pixels
     * @param y
     *            the coord y of the app in pixels
     *
     * @return
     *            the newly-created HDFView Shell
     */
    public Shell openMainWindow(List<File> flist, int width, int height, int x, int y) {
        log.debug("openMainWindow enter");

        // Initialize all GUI components
        mainWindow = createMainWindow();

        try {
            Font font = null;
            String fType = ViewProperties.getFontType();
            int fSize = ViewProperties.getFontSize();

            try {
                font = new Font(display, fType, fSize, SWT.NORMAL);
            }
            catch (Exception ex) {
                font = null;
            }

            if (font != null)
                updateFont(font);
        }
        catch (Exception ex) {
            log.debug("Failed to load Font properties");
        }

        // Make sure all GUI components are in place before
        // opening any files
        mainWindow.pack();

        int nfiles = flist.size();
        File theFile = null;
        for (int i = 0; i < nfiles; i++) {
            theFile = flist.get(i);

            if (theFile.isFile()) {
                currentDir = theFile.getParentFile().getAbsolutePath();
                currentFile = theFile.getAbsolutePath();

                try {
                    treeView.openFile(currentFile, FileFormat.WRITE);

                    try {
                        url_bar.remove(currentFile);
                    }
                    catch (Exception ex) {}

                    url_bar.add(currentFile, 0);
                    url_bar.select(0);
                }
                catch (Exception ex) {
                    showStatus(ex.toString());
                }
            }
            else {
                currentDir = theFile.getAbsolutePath();
            }

            log.info("CurrentDir is {}", currentDir);
        }

        if (FileFormat.getFileFormat(FileFormat.FILE_TYPE_HDF4) == null)
            setEnabled(h4GUIs, false);

        if (FileFormat.getFileFormat(FileFormat.FILE_TYPE_HDF5) == null)
            setEnabled(h5GUIs, false);

        // Set size of main window
        // float inset = 0.17f; // for UG only.
        float inset = 0.04f;
        Point winDim = new Point(width, height);

        // If given height and width are too small, adjust accordingly
        if (height <= 300) {
            winDim.y = (int) ((1 - 2 * inset) * mainWindow.getSize().y);
        }

        if (width <= 300) {
            winDim.x = (int) (0.9 * mainWindow.getSize().y);
        }

        mainWindow.setLocation(x, y);
        mainWindow.setSize(winDim.x + 200, winDim.y);

        // Display the window
        mainWindow.open();
        log.debug("openMainWindow exit");
        return mainWindow;
    }

    public void runMainWindow() {
        log.debug("runMainWindow enter");

        while(!mainWindow.isDisposed()) {
            // ===================================================
            // Wrap each event dispatch in an exception handler
            // so that if any event causes an exception it does
            // not break the main UI loop
            // ===================================================
            try {
                if (!display.readAndDispatch()) {
                    display.sleep();
                }
            }
            catch (Exception e) {
                e.printStackTrace();
            }
        }

        if (!isTesting) display.dispose();
        log.debug("runMainWindow exit");
    }

    /**
     * Creates and lays out GUI components.
     *
     * <pre>
     * ||=========||=============================||
     * ||         ||                             ||
     * ||         ||                             ||
     * || TreeView||       ContentPane           ||
     * ||         ||                             ||
     * ||=========||=============================||
     * ||            Message Area                ||
     * ||========================================||
     * </pre>
     */
    private Shell createMainWindow() {
        // Create a new display window
        final Shell shell = new Shell(display);
        shell.setImage(ViewProperties.getHdfIcon());
        shell.setFont(currentFont);
        shell.setText("HDFView " + HDFVIEW_VERSION);
        shell.setLayout(new GridLayout(3, false));
        shell.addDisposeListener(new DisposeListener() {
            @Override
            public void widgetDisposed(DisposeEvent e) {
                ViewProperties.setRecentFiles(new Vector<>(Arrays.asList(url_bar.getItems())));

                try {
                    props.save();
                }
                catch (Exception ex) {}

                closeAllWindows();

                // Close all open files
                try {
                    List<FileFormat> filelist = treeView.getCurrentFiles();

                    if((filelist != null) && (filelist.size() > 0)) {
                        Object[] files = filelist.toArray();

                        for (int i = 0; i < files.length; i++) {
                            try {
                                treeView.closeFile((FileFormat) files[i]);
                            }
                            catch (Throwable ex) {
                                continue;
                            }
                        }
                    }
                }
                catch (Exception ex) {}

                if (currentFont != null) currentFont.dispose();
            }
        });

        createMenuBar(shell);
        createToolbar(shell);
        createUrlToolbar(shell);
        createContentArea(shell);

        log.info("Main Window created");

        return shell;
    }

    private void createMenuBar(final Shell shell) {
        Menu menu = new Menu(shell, SWT.BAR);
        shell.setMenuBar(menu);

        MenuItem menuItem = new MenuItem(menu, SWT.CASCADE);
        menuItem.setText("&File");

        Menu fileMenu = new Menu(menuItem);
        menuItem.setMenu(fileMenu);

        MenuItem item = new MenuItem(fileMenu, SWT.PUSH);
        item.setText("&Open\tCtrl-O");
        item.setAccelerator(SWT.MOD1 + 'O');
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                openLocalFile(null, -1);
            }
        });

        item = new MenuItem(fileMenu, SWT.CASCADE);
        item.setText("Open As");

        Menu openAsMenu = new Menu(item);
        item.setMenu(openAsMenu);

        item = new MenuItem(openAsMenu, SWT.PUSH);
        item.setText("Read-Only");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                openLocalFile(null, FileFormat.READ);
            }
        });

        item = new MenuItem(openAsMenu, SWT.PUSH);
        item.setText("Read/Write");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                openLocalFile(null, FileFormat.WRITE);
            }
        });

        new MenuItem(fileMenu, SWT.SEPARATOR);

        MenuItem fileNewMenu = new MenuItem(fileMenu, SWT.CASCADE);
        fileNewMenu.setText("New");

        Menu newMenu = new Menu(fileNewMenu);
        fileNewMenu.setMenu(newMenu);

        item = new MenuItem(newMenu, SWT.PUSH);
        item.setText("HDF&4");
        h4GUIs.add(item);
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                if (currentDir != null) {
                    currentDir += File.separator;
                }
                else {
                    currentDir = "";
                }

                String filename = null;

                if (!isTesting) {
                    FileDialog fChooser = new FileDialog(shell, SWT.SAVE);
                    fChooser.setFileName(Tools.checkNewFile(currentDir, ".hdf").getName());

                    DefaultFileFilter filter = DefaultFileFilter.getFileFilterHDF4();
                    fChooser.setFilterExtensions(new String[] {filter.getExtensions()});
                    fChooser.setFilterNames(new String[] {filter.getDescription()});
                    fChooser.setFilterIndex(0);

                    filename = fChooser.open();
                }
                else {
                    // Prepend test file directory to filename
                    filename = currentDir.concat(new InputDialog(mainWindow, "Enter a file name", "").open());
                }

                if(filename == null) return;

                try {
                    log.trace("HDFView create hdf4 file");
                    FileFormat theFile = Tools.createNewFile(filename, currentDir,
                            FileFormat.FILE_TYPE_HDF4, getTreeView().getCurrentFiles());

                    if (theFile == null) return;

                    currentDir = theFile.getParent();
                }
                catch (Exception ex) {
                    Tools.showError(mainWindow, "New", ex.getMessage());
                    return;
                }

                try {
                    treeView.openFile(filename, FileFormat.WRITE);
                    currentFile = filename;

                    try {
                        url_bar.remove(filename);
                    }
                    catch (Exception ex) {}

                    url_bar.add(filename, 0);
                    url_bar.select(0);
                }
                catch (Exception ex) {
                    display.beep();
                    Tools.showError(mainWindow, "New", ex.getMessage() + "\n" + filename);
                }
            }
        });

        item = new MenuItem(newMenu, SWT.PUSH);
        item.setText("HDF&5");
        h5GUIs.add(item);
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                if (currentDir != null) {
                    currentDir += File.separator;
                }
                else {
                    currentDir = "";
                }

                String filename = null;

                if (!isTesting) {
                    FileDialog fChooser = new FileDialog(shell, SWT.SAVE);
                    fChooser.setFileName(Tools.checkNewFile(currentDir, ".h5").getName());

                    DefaultFileFilter filter = DefaultFileFilter.getFileFilterHDF5();
                    fChooser.setFilterExtensions(new String[] {filter.getExtensions()});
                    fChooser.setFilterNames(new String[] {filter.getDescription()});
                    fChooser.setFilterIndex(0);

                    filename = fChooser.open();
                }
                else {
                    // Prepend test file directory to filename
                    filename = currentDir.concat(new InputDialog(mainWindow, "Enter a file name", "").open());
                }

                if(filename == null) return;

                try {
                    log.trace("HDFView create hdf5 file");
                    FileFormat theFile = Tools.createNewFile(filename, currentDir,
                            FileFormat.FILE_TYPE_HDF5, getTreeView().getCurrentFiles());

                    if (theFile == null) return;

                    currentDir = theFile.getParent();
                }
                catch (Exception ex) {
                    Tools.showError(mainWindow, "New", ex.getMessage());
                    return;
                }

                try {
                    treeView.openFile(filename, FileFormat.WRITE);
                    currentFile = filename;

                    try {
                        url_bar.remove(filename);
                    }
                    catch (Exception ex) {}

                    url_bar.add(filename, 0);
                    url_bar.select(0);
                }
                catch (Exception ex) {
                    display.beep();
                    Tools.showError(mainWindow, "New", ex.getMessage() + "\n" + filename);
                }
            }
        });

        new MenuItem(fileMenu, SWT.SEPARATOR);

        item = new MenuItem(fileMenu, SWT.PUSH);
        item.setText("&Close");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                closeFile(treeView.getSelectedFile());
            }
        });

        item = new MenuItem(fileMenu, SWT.PUSH);
        item.setText("Close &All");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                closeAllWindows();

                List<FileFormat> files = treeView.getCurrentFiles();
                while (!files.isEmpty()) {
                    try {
                        treeView.closeFile(files.get(0));
                    }
                    catch (Exception ex) {}
                }

                currentFile = null;

                for (Control control : generalArea.getChildren()) control.dispose();
                generalArea.setContent(null);

                url_bar.setText("");
            }
        });

        new MenuItem(fileMenu, SWT.SEPARATOR);

        item = new MenuItem(fileMenu, SWT.PUSH);
        item.setText("&Save");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                if (treeView.getCurrentFiles().size() <= 0) {
                    Tools.showError(mainWindow, "Save", "No files currently open.");
                    return;
                }

                if (treeView.getSelectedFile() == null) {
                    Tools.showError(mainWindow, "Save", "No files currently selected.");
                    return;
                }

                // Save what has been changed in memory into file
                writeDataToFile(treeView.getSelectedFile());
            }
        });

        item = new MenuItem(fileMenu, SWT.PUSH);
        item.setText("S&ave As");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                if (treeView.getCurrentFiles().size() <= 0) {
                    Tools.showError(mainWindow, "Save", "No files currently open.");
                    return;
                }

                if (treeView.getSelectedFile() == null) {
                    Tools.showError(mainWindow, "Save", "No files currently selected.");
                    return;
                }

                try {
                    treeView.saveFile(treeView.getSelectedFile());
                }
                catch (Exception ex) {
                    display.beep();
                    Tools.showError(mainWindow, "Save", ex.getMessage());
                }
            }
        });

        new MenuItem(fileMenu, SWT.SEPARATOR);

        item = new MenuItem(fileMenu, SWT.PUSH);
        item.setText("E&xit\tCtrl-Q");
        item.setAccelerator(SWT.MOD1 + 'Q');
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                mainWindow.dispose();
            }
        });

        menuItem = new MenuItem(menu, SWT.CASCADE);
        menuItem.setText("&Window");

        windowMenu = new Menu(menuItem);
        menuItem.setMenu(windowMenu);

        item = new MenuItem(windowMenu, SWT.PUSH);
        item.setText("&Cascade");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                cascadeWindows();
            }
        });

        item = new MenuItem(windowMenu, SWT.PUSH);
        item.setText("&Tile");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                tileWindows();
            }
        });

        new MenuItem(windowMenu, SWT.SEPARATOR);

        item = new MenuItem(windowMenu, SWT.PUSH);
        item.setText("Close &All");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                closeAllWindows();
            }
        });

        new MenuItem(windowMenu, SWT.SEPARATOR);

        menuItem = new MenuItem(menu, SWT.CASCADE);
        menuItem.setText("&Tools");

        Menu toolsMenu = new Menu(menuItem);
        menuItem.setMenu(toolsMenu);

        MenuItem convertMenuItem = new MenuItem(toolsMenu, SWT.CASCADE);
        convertMenuItem.setText("Convert Image To");

        Menu convertMenu = new Menu(convertMenuItem);
        convertMenuItem.setMenu(convertMenu);

        item = new MenuItem(convertMenu, SWT.PUSH);
        item.setText("HDF4");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                convertFile(Tools.FILE_TYPE_IMAGE, FileFormat.FILE_TYPE_HDF4);
            }
        });
        h4GUIs.add(item);

        item = new MenuItem(convertMenu, SWT.PUSH);
        item.setText("HDF5");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                convertFile(Tools.FILE_TYPE_IMAGE, FileFormat.FILE_TYPE_HDF5);
            }
        });
        h5GUIs.add(item);

        new MenuItem(toolsMenu, SWT.SEPARATOR);

        item = new MenuItem(toolsMenu, SWT.PUSH);
        item.setText("User &Options");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                // Create the preference manager
                PreferenceManager mgr = new PreferenceManager();

                // Create the nodes
                UserOptionsNode one = new UserOptionsNode("general", new UserOptionsGeneralPage());
                UserOptionsNode two = new UserOptionsNode("hdf", new UserOptionsHDFPage());

                /*
                 * TODO: Disabled until module loading is supported
                 */
                /*
                 * UserOptionsNode three = new UserOptionsNode("modules", new UserOptionsViewModulesPage());
                 */

                // Add the nodes
                mgr.addToRoot(one);
                mgr.addToRoot(two);

                /*
                 * TODO: Disabled until module loading is supported
                 */
                /* mgr.addToRoot(three); */

                // Create the preferences dialog
                userOptionDialog = new UserOptionsDialog(shell, mgr, rootDir);

                // Set the preference store
                userOptionDialog.setPreferenceStore(props);
                userOptionDialog.create();

                // Open the dialog
                userOptionDialog.open();

                //if (userOptionDialog.isWorkDirChanged())
                currentDir = ViewProperties.getWorkDir();

                //if (userOptionDialog.isFontChanged()) {
                Font font = null;

                try {
                    font = new Font(display, ViewProperties.getFontType(), ViewProperties.getFontSize(), SWT.NORMAL);
                }
                catch (Exception ex) {
                    font = null;
                }

                updateFont(font);
                //}
            }
        });

        new MenuItem(toolsMenu, SWT.SEPARATOR);

        item = new MenuItem(toolsMenu, SWT.PUSH);
        item.setText("&Register File Format");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                registerFileFormat();
            }
        });

        item = new MenuItem(toolsMenu, SWT.PUSH);
        item.setText("&Unregister File Format");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                unregisterFileFormat();
            }
        });

        menuItem = new MenuItem(menu, SWT.CASCADE);
        menuItem.setText("&Help");

        Menu helpMenu = new Menu(menuItem);
        menuItem.setMenu(helpMenu);

        item = new MenuItem(helpMenu, SWT.PUSH);
        item.setText("&User's Guide");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                org.eclipse.swt.program.Program.launch(HDFVIEW_USERSGUIDE_URL);
            }
        });

        if ((helpViews != null) && (helpViews.size() > 0)) {
            int n = helpViews.size();
            for (int i = 0; i < n; i++) {
                HelpView theView = (HelpView) helpViews.get(i);
                item = new MenuItem(helpMenu, SWT.PUSH);
                item.setText(theView.getLabel());
                //item.setActionCommand(theView.getActionCommand());
            }
        }

        new MenuItem(helpMenu, SWT.SEPARATOR);

        item = new MenuItem(helpMenu, SWT.PUSH);
        item.setText("HDF&4 Library Version");
        h4GUIs.add(item);
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                new LibraryVersionDialog(shell, FileFormat.FILE_TYPE_HDF4).open();
            }
        });

        item = new MenuItem(helpMenu, SWT.PUSH);
        item.setText("HDF&5 Library Version");
        h5GUIs.add(item);
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                new LibraryVersionDialog(shell, FileFormat.FILE_TYPE_HDF5).open();
            }
        });

        item = new MenuItem(helpMenu, SWT.PUSH);
        item.setText("&Java Version");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                new JavaVersionDialog(mainWindow).open();
            }
        });

        new MenuItem(helpMenu, SWT.SEPARATOR);

        item = new MenuItem(helpMenu, SWT.PUSH);
        item.setText("Supported Fi&le Formats");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                new SupportedFileFormatsDialog(mainWindow).open();
            }
        });

        new MenuItem(helpMenu, SWT.SEPARATOR);

        item = new MenuItem(helpMenu, SWT.PUSH);
        item.setText("&About...");
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                new AboutDialog(mainWindow).open();
            }
        });

        setEnabled(Arrays.asList(windowMenu.getItems()), false);

        log.info("Menubar created");
    }

    private void createToolbar(final Shell shell) {
        toolBar = new ToolBar(shell, SWT.HORIZONTAL | SWT.RIGHT);
        toolBar.setFont(Display.getCurrent().getSystemFont());
        toolBar.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, false, 3, 1));

        ToolItem openItem = new ToolItem(toolBar, SWT.PUSH);
        openItem.setToolTipText("Open");
        openItem.setImage(ViewProperties.getFileopenIcon());
        openItem.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                openLocalFile(null, -1);
            }
        });

        new ToolItem(toolBar, SWT.SEPARATOR).setWidth(4);

        ToolItem closeItem = new ToolItem(toolBar, SWT.PUSH);
        closeItem.setImage(ViewProperties.getFilecloseIcon());
        closeItem.setToolTipText("Close");
        closeItem.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                closeFile(treeView.getSelectedFile());
            }
        });

        new ToolItem(toolBar, SWT.SEPARATOR).setWidth(20);

        ToolItem helpItem = new ToolItem(toolBar, SWT.PUSH);
        helpItem.setImage(ViewProperties.getHelpIcon());
        helpItem.setToolTipText("Help");
        helpItem.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                String ugPath = ViewProperties.getUsersGuide();

                if(ugPath == null || !ugPath.startsWith("http://")) {
                    String sep = File.separator;
                    File tmpFile = new File(ugPath);

                    if(!(tmpFile.exists())) {
                        ugPath = rootDir + sep + "UsersGuide" + sep + "index.html";
                        tmpFile = new File(ugPath);

                        if(!(tmpFile.exists())) {
                            ugPath = HDFVIEW_USERSGUIDE_URL;
                        }

                        ViewProperties.setUsersGuide(ugPath);
                    }
                }

                try {
                    org.eclipse.swt.program.Program.launch(ugPath);
                }
                catch (Exception ex) {
                    Tools.showError(shell, "Help", ex.getMessage());
                }
            }
        });

        new ToolItem(toolBar, SWT.SEPARATOR).setWidth(4);

        ToolItem hdf4Item = new ToolItem(toolBar, SWT.PUSH);
        hdf4Item.setImage(ViewProperties.getH4Icon());
        hdf4Item.setToolTipText("HDF4 Library Version");
        hdf4Item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                new LibraryVersionDialog(shell, FileFormat.FILE_TYPE_HDF4).open();
            }
        });

        if(FileFormat.getFileFormat(FileFormat.FILE_TYPE_HDF4) == null) {
            hdf4Item.setEnabled(false);
        }

        new ToolItem(toolBar, SWT.SEPARATOR).setWidth(4);

        ToolItem hdf5Item = new ToolItem(toolBar, SWT.PUSH);
        hdf5Item.setImage(ViewProperties.getH5Icon());
        hdf5Item.setToolTipText("HDF5 Library Version");
        hdf5Item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                new LibraryVersionDialog(shell, FileFormat.FILE_TYPE_HDF5).open();
            }
        });

        if(FileFormat.getFileFormat(FileFormat.FILE_TYPE_HDF5) == null) {
            hdf5Item.setEnabled(false);
        }

        // Make the toolbar as wide as the window and as
        // tall as the buttons
        toolBar.setSize(shell.getClientArea().width, openItem.getBounds().height);
        toolBar.setLocation(0, 0);

        log.info("Toolbar created");
    }

    private void createUrlToolbar(final Shell shell) {
        // Recent Files button
        recentFilesButton = new Button(shell, SWT.PUSH);
        recentFilesButton.setFont(currentFont);
        recentFilesButton.setText("Recent Files");
        recentFilesButton.setToolTipText("List of recent files");
        recentFilesButton.setLayoutData(new GridData(SWT.FILL, SWT.FILL, false, false));
        recentFilesButton.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                url_bar.setListVisible(true);
            }
        });

        // Recent files combo box
        url_bar = new Combo(shell, SWT.BORDER | SWT.SINGLE);
        url_bar.setFont(currentFont);
        url_bar.setItems(ViewProperties.getMRF().toArray(new String[0]));
        url_bar.setVisibleItemCount(ViewProperties.MAX_RECENT_FILES);
        url_bar.deselectAll();
        url_bar.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, false));
        url_bar.addKeyListener(new KeyAdapter() {
            @Override
            public void keyPressed(KeyEvent e) {
                if(e.keyCode == SWT.CR) {
                    String filename = url_bar.getText();
                    if (filename == null || filename.length() < 1 || filename.equals(currentFile)) {
                        return;
                    }

                    if (!(filename.startsWith("http://") || filename.startsWith("https://") || filename.startsWith("ftp://"))) {
                        openLocalFile(filename, -1);
                    }
                    else {
                        String remoteFile = openRemoteFile(filename);

                        if (remoteFile != null) openLocalFile(remoteFile, -1);
                    }
                }
            }
        });
        url_bar.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                String filename = url_bar.getText();
                if (filename == null || filename.length() < 1 || filename.equals(currentFile)) {
                    return;
                }

                if (!(filename.startsWith("http://") || filename.startsWith("https://") || filename.startsWith("ftp://"))) {
                    openLocalFile(filename, -1);
                }
                else {
                    String remoteFile = openRemoteFile(filename);

                    if (remoteFile != null) openLocalFile(remoteFile, -1);
                }
            }
        });

        clearTextButton = new Button(shell, SWT.PUSH);
        clearTextButton.setToolTipText("Clear current selection");
        clearTextButton.setFont(currentFont);
        clearTextButton.setText("Clear Text");
        clearTextButton.setLayoutData(new GridData(SWT.FILL, SWT.FILL, false, false));
        clearTextButton.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                url_bar.setText("");
                url_bar.deselectAll();
            }
        });

        log.info("URL Toolbar created");
    }

    private void createContentArea(final Shell shell) {
        SashForm content = new SashForm(shell, SWT.VERTICAL);
        content.setSashWidth(10);
        content.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, true, 3, 1));

        // Add Data content area and Status Area to main window
        Composite container = new Composite(content, SWT.NONE);
        container.setLayout(new FillLayout());

        Composite statusArea = new Composite(content, SWT.NONE);
        statusArea.setLayout(new FillLayout(SWT.HORIZONTAL));

        final SashForm contentArea = new SashForm(container, SWT.HORIZONTAL);
        contentArea.setSashWidth(10);

        // Add TreeView and DataView to content area pane
        ScrolledComposite treeArea = new ScrolledComposite(contentArea, SWT.H_SCROLL | SWT.V_SCROLL | SWT.BORDER);
        treeArea.setBackground(Display.getCurrent().getSystemColor(SWT.COLOR_WHITE));
        treeArea.setExpandHorizontal(true);
        treeArea.setExpandVertical(true);

        generalArea = new ScrolledComposite(contentArea, SWT.H_SCROLL | SWT.V_SCROLL | SWT.BORDER);
        generalArea.setExpandHorizontal(true);
        generalArea.setExpandVertical(true);
        generalArea.setBackground(Display.getCurrent().getSystemColor(SWT.COLOR_WIDGET_LIGHT_SHADOW));
        generalArea.setMinHeight(contentArea.getSize().y - 2);

        // Create status area for displaying messages and metadata
        status = new Text(statusArea, SWT.V_SCROLL | SWT.MULTI | SWT.BORDER);
        status.setBackground(Display.getCurrent().getSystemColor(SWT.COLOR_WIDGET_LIGHT_SHADOW));
        status.setEditable(false);
        status.setFont(currentFont);

        contentArea.addListener(SWT.Resize, new Listener() {
            @Override
            public void handleEvent(Event arg0) {
                generalArea.setMinHeight(contentArea.getSize().y - 2);
            }
        });

        // Add drag and drop support for opening files
        DropTarget target = new DropTarget(treeArea, DND.DROP_COPY);
        final FileTransfer fileTransfer = FileTransfer.getInstance();
        target.setTransfer(new Transfer[] { fileTransfer });
        target.addDropListener(new DropTargetListener() {
            @Override
            public void dragEnter(DropTargetEvent e) {
                e.detail = DND.DROP_COPY;
            }
            @Override
            public void dragOver(DropTargetEvent e) {}
            @Override
            public void dragOperationChanged(DropTargetEvent e) { }
            @Override
            public void dragLeave(DropTargetEvent e) {}
            @Override
            public void dropAccept(DropTargetEvent e) {}
            @Override
            public void drop(DropTargetEvent e) {
                if (fileTransfer.isSupportedType(e.currentDataType)) {
                    String[] files = (String[]) e.data;
                    for (int i = 0; i < files.length; i++) {
                        openLocalFile(files[i], -1);
                    }
                }
            }
        });

        showStatus("HDFView root - " + rootDir);
        showStatus("User property file - " + ViewProperties.getPropertyFile());

        content.setWeights(new int[] { 9, 1 });
        contentArea.setWeights(new int[] { 1, 3 });

        log.trace("createContentArea(): load TreeView");

        DataViewFactory treeViewFactory = DataViewFactoryProducer.getFactory(DataViewType.TREEVIEW);
        if (treeViewFactory == null) {
            log.debug("createContentArea(): TreeView Factory is null");
            return;
        }

        try {
            treeView = treeViewFactory.getTreeView(treeArea, this);

            if (treeView == null) {
                log.debug("createContentArea(): error occurred while instantiating TreeView class");
                this.showStatus("Error occurred while instantiating TreeView class - see log for more info");
                return;
            }
        }
        catch (ClassNotFoundException ex) {
            log.debug("createContentArea(): no suitable TreeView class found");
            this.showStatus("Unable to find suitable TreeView class");
            return;
        }

        treeArea.setContent(treeView.getTree());

        log.info("Content Area created");
    }

    /**
     * @return a list of treeview implementations.
     */
    public static final List<String> getListOfTreeViews() {
        return treeViews;
    }

    /**
     * @return a list of imageview implementations.
     */
    public static final List<String> getListOfImageViews() {
        return imageViews;
    }

    /**
     * @return a list of tableview implementations.
     */
    public static final List<?> getListOfTableViews() {
        return tableViews;
    }

    /**
     * @return a list of metaDataview implementations.
     */
    public static final List<?> getListOfMetaDataViews() {
        return metaDataViews;
    }

    /**
     * @return a list of paletteview implementations.
     */
    public static final List<?> getListOfPaletteViews() {
        return paletteViews;
    }

    @Override
    public TreeView getTreeView() {
        return treeView;
    }

    public Combo getUrlBar() {
        return url_bar;
    }

    /**
     * Display feedback message.
     *
     * @param msg
     *            the message to display.
     */
    @Override
    public void showStatus(String msg) {
        if (status == null) {
            log.debug("showStatus(): status area is null");
            return;
        }

        status.append(msg);
        status.append("\n");
    }

    public void showMetaData(final HObject obj) {
        for (Control control : generalArea.getChildren()) control.dispose();
        generalArea.setContent(null);

        if (obj == null) return;

        log.trace("showMetaData(): start");

        DataViewFactory metaDataViewFactory = DataViewFactoryProducer.getFactory(DataViewType.METADATA);
        if (metaDataViewFactory == null) return;

        MetaDataView theView;
        try {
            theView = metaDataViewFactory.getMetaDataView(generalArea, this, obj);

            if (theView == null) {
                log.debug("showMetaData(): error occurred while instantiating MetaDataView class");
                this.showStatus("Error occurred while instantiating MetaDataView class - see log for more info");
                return;
            }
        }
        catch (ClassNotFoundException ex) {
            log.debug("showMetaData(): no suitable MetaDataView class found");
            this.showStatus("Unable to find suitable MetaDataView class");
            return;
        }

        // String viewName = (String) HDFView.getListOfMetaDataViews().get(0);
        //
        // try {
        // Class<?> theClass = Class.forName(viewName);
        // if ("hdf.view.DefaultMetaDataView".equals(viewName)) {
        // Object[] initargs = { generalArea, this, obj };
        // Tools.newInstance(theClass, initargs);
        // }
        // else {
        // Object[] initargs = { this, obj };
        // Tools.newInstance(theClass, initargs);
        // }
        // }
        // catch (Exception ex) {
        // this.showStatus(ex.toString());
        // }

        log.trace("showMetaData(): finish");
    }

    public void closeFile(FileFormat theFile) {
        if (theFile == null) {
            display.beep();
            Tools.showError(mainWindow, "Close", "Select a file to close");
            return;
        }

        // Close all the data windows of this file
        Shell[] views = display.getShells();
        if (views != null) {
            for (int i = 0; i < views.length; i++) {
                Object shellData = views[i].getData();

                if (!(shellData instanceof DataView)) continue;

                if ((DataView) shellData != null) {
                    HObject obj = ((DataView) shellData).getDataObject();

                    if (obj == null || obj.getFileFormat() == null) continue;

                    if (obj.getFileFormat().equals(theFile)) {
                        views[i].dispose();
                        views[i] = null;
                    }
                }
            }
        }

        int index = url_bar.getSelectionIndex();
        if (index >= 0) {
            String fName = url_bar.getItem(url_bar.getSelectionIndex());
            if (theFile.getFilePath().equals(fName)) {
                currentFile = null;
                url_bar.setText("");
            }
        }

        try {
            treeView.closeFile(theFile);
        }
        catch (Exception ex) {}

        theFile = null;

        for (Control control : generalArea.getChildren()) control.dispose();
        generalArea.setContent(null);

        System.gc();
    }

    /**
     * Write the change of data to the given file.
     *
     * @param theFile
     *           The file to be updated.
     */
    public void writeDataToFile(FileFormat theFile) {
        try {
            Shell[] openShells = display.getShells();

            if (openShells != null) {
                for (int i = 0; i < openShells.length; i++) {
                    DataView theView = (DataView) openShells[i].getData();

                    if (theView instanceof TableView) {
                        TableView tableView = (TableView) theView;
                        FileFormat file = tableView.getDataObject().getFileFormat();
                        if (file.equals(theFile)) tableView.updateValueInFile();
                    }
                }
            }
        }
        catch (Exception ex) {
            display.beep();
            Tools.showError(mainWindow, "Save", ex.getMessage());
        }
    }

    @Override
    public void addDataView(DataView dataView) {
        if (dataView == null || dataView instanceof MetaDataView) {
            return;
        }

        // Check if the data content is already displayed
        Shell[] shellList = display.getShells();
        if (shellList != null) {
            for (int i = 0; i < shellList.length; i++) {
                if (dataView.equals(shellList[i].getData())
                        && shellList[i].isVisible()) {
                    showWindow(shellList[i]);
                    return;
                }
            }
        }

        // First window being added
        if (shellList.length == 2) {
            setEnabled(Arrays.asList(windowMenu.getItems()), true);
        }

        HObject obj = dataView.getDataObject();
        String fullPath = ((obj.getPath() == null) ? "" : obj.getPath())
                + ((obj.getName() == null) ? "" : obj.getName());

        MenuItem item = new MenuItem(windowMenu, SWT.PUSH);
        item.setText(fullPath);
        item.addSelectionListener(new SelectionAdapter() {
            @Override
            public void widgetSelected(SelectionEvent e) {
                Shell[] sList = display.getShells();

                for (int i = 0; i < sList.length; i++) {
                    DataView view = (DataView) sList[i].getData();

                    if (view != null) {
                        HObject obj = view.getDataObject();

                        if (obj.getFullName().equals(((MenuItem) e.widget).getText())) {
                            showWindow(sList[i]);
                        }
                    }
                }
            }
        });

        mainWindow.setCursor(null);
    }

    @Override
    public void removeDataView(DataView dataView) {
        if (mainWindow.isDisposed()) return;

        HObject obj = dataView.getDataObject();
        if (obj == null) return;

        MenuItem[] items = windowMenu.getItems();
        for (int i = 0; i < items.length; i++) {
            if(items[i].getText().equals(obj.getFullName())) {
                items[i].dispose();
            }
        }

        // Last window being closed
        if (display.getShells().length == 2) {
            for (MenuItem item : windowMenu.getItems()) item.setEnabled(false);
        }
    }

    @Override
    public DataView getDataView(HObject dataObject) {
        Shell[] openShells = display.getShells();
        DataView view = null;
        HObject currentObj = null;
        FileFormat currentFile = null;

        for (int i = 0; i < openShells.length; i++) {
            view = (DataView) openShells[i].getData();

            if (view != null) {
                currentObj = view.getDataObject();
                if (currentObj == null) continue;

                currentFile = currentObj.getFileFormat();

                if (currentObj.equals(dataObject) && currentFile.equals(dataObject.getFileFormat()))
                    return view;
            }
        }

        return null;
    }

    /**
     * Set the testing state that determines if HDFView
     * is being executed for GUI testing.
     *
     * @param testing
     *           Provides SWTBot native dialog compatibility
     *           workarounds if set to true.
     */
    public void setTestState(boolean testing) {
        isTesting = testing;
        currentDir = rootDir;
    }

    public boolean getTestState() {
        return isTesting;
    }

    /**
     * Set default UI fonts.
     */
    private void updateFont(Font font) {
        if (currentFont != null) currentFont.dispose();

        currentFont = font;

        mainWindow.setFont(font);
        recentFilesButton.setFont(font);
        url_bar.setFont(font);
        clearTextButton.setFont(font);
        status.setFont(font);

        // On certain platforms the url_bar items don't update their size after
        // a font change. Removing and replacing them fixes this.
        for (String item : url_bar.getItems()) {
            url_bar.remove(item);
            url_bar.add(item);
        }

        if (treeView.getSelectedFile() != null) {
            url_bar.select(0);
        }

        ((DefaultTreeView) treeView).updateFont(font);

        mainWindow.layout();
    }

    /**
     * Bring window to the front.
     * <p>
     *
     * @param name
     *               the name of the window to show.
     */
    private void showWindow(final Shell shell) {
        shell.getDisplay().asyncExec(new Runnable() {
            @Override
            public void run() {
                shell.forceActive();
            }
        });
    }

    /**
     * Cascade all windows.
     */
    private void cascadeWindows() {
        Shell[] sList = display.getShells();

        // Return if main window (shell) is the only open shell
        if (sList.length <= 1) return;

        int x = 2, y = 2;
        Shell shell = null;

        Rectangle bounds = Display.getCurrent().getPrimaryMonitor().getClientArea();
        int w = Math.max(50, bounds.width - 100);
        int h = Math.max(50, bounds.height - 100);

        x = bounds.x;
        y = bounds.y;

        for (int i = 0; i < sList.length; i++) {
            shell = sList[i];
            shell.setBounds(x, y, w, h);
            shell.setActive();
            x += 20;
            y += 20;
        }
    }

    /**
     * Tile all windows.
     */
    private void tileWindows() {
        Shell[] sList = display.getShells();

        // Return if main window (shell) is the only open shell
        if (sList.length <= 1) return;

        int x = 0, y = 0, idx = 0;
        Shell shell = null;

        int n = sList.length;
        int cols = (int) Math.sqrt(n);
        int rows = (int) Math.ceil((double) n / (double) cols);

        Rectangle bounds = Display.getCurrent().getPrimaryMonitor().getClientArea();
        int w = bounds.width / cols;
        int h = bounds.height / rows;

        y = bounds.y;
        for (int i = 0; i < rows; i++) {
            x = bounds.x;

            for (int j = 0; j < cols; j++) {
                idx = i * cols + j;
                if (idx >= n)
                    return;

                shell = sList[idx];
                shell.setBounds(x, y, w, h);
                shell.setActive();
                x += w;
            }

            y += h;
        }
    }

    /**
     * Closes all windows.
     */
    private void closeAllWindows() {
        Shell[] sList = display.getShells();

        for (int i = 0; i < sList.length; i++) {
            if (sList[i].equals(mainWindow)) continue;
            sList[i].dispose();
        }
    }

    /* Enable and disable GUI components */
    private static void setEnabled(List<MenuItem> list, boolean b) {
        Iterator<MenuItem> it = list.iterator();

        while (it.hasNext())
            it.next().setEnabled(b);
    }

    /** Open local file */
    private void openLocalFile(String filename, int fileAccessID) {
        log.trace("openLocalFile {},{}",filename, fileAccessID);

        /*
         * If given a specific access mode, use it without changing it. If not given a
         * specific access mode, check the current status of the "is read only" property
         * to determine how to open the file. This is to allow one time overrides of the
         * default file access mode when opening a file.
         */
        int accessMode = fileAccessID;
        if (accessMode < 0) {
            if (ViewProperties.isReadOnly())
                accessMode = FileFormat.READ;
            else
                accessMode = FileFormat.WRITE;
        }

        String[] selectedFilenames = null;
        File[] chosenFiles = null;

        if (filename != null) {
            File file = new File(filename);
            if(!file.exists()) {
                Tools.showError(mainWindow, "Open", "File " + filename + " does not exist.");
                return;
            }

            if(file.isDirectory()) {
                currentDir = filename;
                openLocalFile(null, -1);
            }
            else {
                currentFile = filename;
            }

            try {
                url_bar.remove(filename);
            }
            catch (Exception ex) {}

            url_bar.add(filename, 0);
            url_bar.select(0);

            try {
                treeView.openFile(filename, accessMode);
            }
            catch (Throwable ex) {
                try {
                    treeView.openFile(filename, FileFormat.READ);
                }
                catch (Throwable ex2) {
                    display.beep();
                    url_bar.deselectAll();
                    Tools.showError(mainWindow, "Open", "Failed to open file " + filename + "\n" + ex2);
                    currentFile = null;
                }
            }
        }
        else {
            if (!isTesting) {
                log.trace("openLocalFile filename is null");
                FileDialog fChooser = new FileDialog(mainWindow, SWT.OPEN | SWT.MULTI);
                fChooser.setText(mainWindow.getText() + " - Open File " + ((accessMode == FileFormat.READ) ? "Read-only" : "Read/Write"));
                fChooser.setFilterPath(currentDir);

                DefaultFileFilter filter = DefaultFileFilter.getFileFilter();
                fChooser.setFilterExtensions(new String[] {"*.*", filter.getExtensions()});
                fChooser.setFilterNames(new String[] {"All Files", filter.getDescription()});
                fChooser.setFilterIndex(1);

                fChooser.open();

                selectedFilenames = fChooser.getFileNames();
                if(selectedFilenames.length <= 0) return;

                chosenFiles = new File[selectedFilenames.length];
                for(int i = 0; i < chosenFiles.length; i++) {
                    log.trace("openLocalFile selectedFilenames[{}]: {}",i,selectedFilenames[i]);
                    chosenFiles[i] = new File(fChooser.getFilterPath() + File.separator + selectedFilenames[i]);

                    if(!chosenFiles[i].exists()) {
                        Tools.showError(mainWindow, "Open", "File " + chosenFiles[i].getName() + " does not exist.");
                        continue;
                    }

                    if (chosenFiles[i].isDirectory()) {
                        currentDir = chosenFiles[i].getPath();
                    }
                    else {
                        currentDir = chosenFiles[i].getParent();
                    }

                    try {
                        url_bar.remove(chosenFiles[i].getAbsolutePath());
                    }
                    catch (Exception ex) {}

                    url_bar.add(chosenFiles[i].getAbsolutePath(), 0);
                    url_bar.select(0);

                    log.trace("openLocalFile treeView.openFile(chosenFiles[{}]: {}",i,chosenFiles[i].getAbsolutePath());
                    try {
                        treeView.openFile(chosenFiles[i].getAbsolutePath(), accessMode + FileFormat.OPEN_NEW);
                    }
                    catch (Throwable ex) {
                        try {
                            treeView.openFile(chosenFiles[i].getAbsolutePath(), FileFormat.READ);
                        }
                        catch (Throwable ex2) {
                            display.beep();
                            url_bar.deselectAll();
                            Tools.showError(mainWindow, "Open", "Failed to open file " + selectedFilenames[i] + "\n" + ex2);
                            currentFile = null;
                        }
                    }
                }

                currentFile = chosenFiles[0].getAbsolutePath();
            }
            else {
                // Prepend test file directory to filename
                String fName = currentDir + File.separator + new InputDialog(mainWindow, "Enter a file name", "").open();

                File chosenFile = new File(fName);

                if(!chosenFile.exists()) {
                    Tools.showError(mainWindow, "Open", "File " + chosenFile.getName() + " does not exist.");
                    return;
                }

                if (chosenFile.isDirectory()) {
                    currentDir = chosenFile.getPath();
                }
                else {
                    currentDir = chosenFile.getParent();
                }

                try {
                    url_bar.remove(chosenFile.getAbsolutePath());
                }
                catch (Exception ex) {}

                url_bar.add(chosenFile.getAbsolutePath(), 0);
                url_bar.select(0);

                log.trace("openLocalFile treeView.openFile(chosenFile[{}]: {}",chosenFile.getAbsolutePath());
                try {
                    treeView.openFile(chosenFile.getAbsolutePath(), accessMode + FileFormat.OPEN_NEW);
                }
                catch (Throwable ex) {
                    try {
                        treeView.openFile(chosenFile.getAbsolutePath(), FileFormat.READ);
                    }
                    catch (Throwable ex2) {
                        display.beep();
                        url_bar.deselectAll();
                        Tools.showError(mainWindow, "Open", "Failed to open file " + chosenFile + "\n" + ex2);
                        currentFile = null;
                    }
                }

                currentFile = chosenFile.getAbsolutePath();
            }
        }
    }

    /** Load remote file and save it to local temporary directory */
    private String openRemoteFile(String urlStr) {
        if (urlStr == null)
            return null;

        String localFile = null;

        if(urlStr.startsWith("http://")) {
            localFile = urlStr.substring(7);
        }
        else if (urlStr.startsWith("https://")) {
            localFile = urlStr.substring(8);
        }
        else if (urlStr.startsWith("ftp://")) {
            localFile = urlStr.substring(6);
        }
        else {
            return null;
        }

        localFile = localFile.replace('/', '@');
        localFile = localFile.replace('\\', '@');

        // Search the local file cache
        String tmpDir = System.getProperty("java.io.tmpdir");

        File tmpFile = new File(tmpDir);
        if (!tmpFile.canWrite()) tmpDir = System.getProperty("user.home");

        localFile = tmpDir + File.separator + localFile;

        tmpFile = new File(localFile);
        if (tmpFile.exists())
            return localFile;

        URL url = null;

        try {
            url = new URL(urlStr);
        }
        catch (Exception ex) {
            url = null;
            display.beep();
            Tools.showError(mainWindow, "Open", ex.getMessage());
            return null;
        }

        BufferedInputStream in = null;
        BufferedOutputStream out = null;

        try {
            in = new BufferedInputStream(url.openStream());
            out = new BufferedOutputStream(new FileOutputStream(tmpFile));
        }
        catch (Exception ex) {
            in = null;
            display.beep();
            Tools.showError(mainWindow, "Open", ex.getMessage());

            try {
                out.close();
            }
            catch (Exception ex2) {
                log.debug("Remote file: ", ex2);
            }

            return null;
        }

        mainWindow.setCursor(display.getSystemCursor(SWT.CURSOR_WAIT));
        byte[] buff = new byte[512]; // set default buffer size to 512
        try {
            int n = 0;
            while ((n = in.read(buff)) > 0) {
                out.write(buff, 0, n);
            }
        }
        catch (Exception ex) {
            log.debug("Remote file: ", ex);
        }

        try {
            in.close();
        }
        catch (Exception ex) {
            log.debug("Remote file: ", ex);
        }

        try {
            out.close();
        }
        catch (Exception ex) {
            log.debug("Remote file: ", ex);
        }

        mainWindow.setCursor(null);

        return localFile;
    }

    private void convertFile(String typeFrom, String typeTo) {
        ImageConversionDialog dialog = new ImageConversionDialog(mainWindow, typeFrom, typeTo,
                currentDir, treeView.getCurrentFiles());
        dialog.open();

        if (dialog.isFileConverted()) {
            String filename = dialog.getConvertedFile();
            File theFile = new File(filename);

            if (!theFile.exists()) return;

            currentDir = theFile.getParentFile().getAbsolutePath();
            currentFile = theFile.getAbsolutePath();

            try {
                treeView.openFile(filename, FileFormat.WRITE);

                try {
                    url_bar.remove(filename);
                }
                catch (Exception ex) {}

                url_bar.add(filename, 0);
                url_bar.select(0);
            }
            catch (Exception ex) {
                showStatus(ex.toString());
            }
        }
    }

    private void registerFileFormat() {
        String msg = "Register a new file format by \nKEY:FILE_FORMAT:FILE_EXTENSION\n"
                + "where, KEY: the unique identifier for the file format"
                + "\n           FILE_FORMAT: the full class name of the file format"
                + "\n           FILE_EXTENSION: the file extension for the file format" + "\n\nFor example, "
                + "\n\t to add NetCDF, \"NetCDF:hdf.object.nc2.NC2File:nc\""
                + "\n\t to add FITS, \"FITS:hdf.object.fits.FitsFile:fits\"\n\n";

        // TODO:Add custom HDFLarge icon to dialog
        InputDialog dialog = new InputDialog(mainWindow, "Register a file format", msg, SWT.ICON_INFORMATION);

        String str = dialog.open();

        if ((str == null) || (str.length() < 1)) return;

        int idx1 = str.indexOf(':');
        int idx2 = str.lastIndexOf(':');

        if ((idx1 < 0) || (idx2 <= idx1)) {
            Tools.showError(mainWindow, "Register File Format", "Failed to register " + str
                    + "\n\nMust in the form of KEY:FILE_FORMAT:FILE_EXTENSION");
            return;
        }

        String key = str.substring(0, idx1);
        String className = str.substring(idx1 + 1, idx2);
        String extension = str.substring(idx2 + 1);

        // Check if the file format has been registered or the key is taken.
        String theKey = null;
        String theClassName = null;
        Enumeration<?> local_enum = FileFormat.getFileFormatKeys();
        while (local_enum.hasMoreElements()) {
            theKey = (String) local_enum.nextElement();
            if (theKey.endsWith(key)) {
                Tools.showError(mainWindow, "Register File Format", "Invalid key: " + key + " is taken.");
                return;
            }

            theClassName = FileFormat.getFileFormat(theKey).getClass().getName();
            if (theClassName.endsWith(className)) {
                Tools.showError(mainWindow, "Register File Format", "The file format has already been registered: " + className);
                return;
            }
        }

        // Enables use of JHDF5 in JNLP (Web Start) applications, the system
        // class loader with reflection first.
        Class<?> theClass = null;
        try {
            theClass = Class.forName(className);
        }
        catch (Exception ex) {
            try {
                theClass = ViewProperties.loadExtClass().loadClass(className);
            }
            catch (Exception ex2) {
                theClass = null;
            }
        }

        if (theClass == null) {
            return;
        }

        try {
            Object theObject = theClass.newInstance();
            if (theObject instanceof FileFormat) {
                FileFormat.addFileFormat(key, (FileFormat) theObject);
            }
        }
        catch (Throwable ex) {
            Tools.showError(mainWindow, "Register File Format", "Failed to register " + str + "\n\n" + ex);
            return;
        }

        if ((extension != null) && (extension.length() > 0)) {
            extension = extension.trim();
            String ext = ViewProperties.getFileExtension();
            ext += ", " + extension;
            ViewProperties.setFileExtension(ext);
        }
    }

    private void unregisterFileFormat() {
        Enumeration<?> keys = FileFormat.getFileFormatKeys();
        ArrayList<Object> keyList = new ArrayList<>();

        while (keys.hasMoreElements())
            keyList.add(keys.nextElement());

        String theKey = new UnregisterFileFormatDialog(mainWindow, SWT.NONE, keyList).open();

        if (theKey == null) return;

        FileFormat.removeFileFormat(theKey);
    }

    private class LibraryVersionDialog extends Dialog {
        private String message;

        public LibraryVersionDialog(Shell parent, String libType) {
            super(parent, SWT.APPLICATION_MODAL | SWT.DIALOG_TRIM);

            if(libType == FileFormat.FILE_TYPE_HDF4)
                setMessage("HDF " + HDF4_VERSION);
            else if (libType == FileFormat.FILE_TYPE_HDF5)
                setMessage("HDF5 " + HDF5_VERSION);
        }

        public void setMessage(String message) {
            this.message = message;
        }

        public void open() {
            Shell dialog = new Shell(getParent(), getStyle());
            dialog.setFont(currentFont);
            dialog.setText("HDF Library Version");

            createContents(dialog);

            dialog.pack();

            Point computedSize = dialog.computeSize(SWT.DEFAULT, SWT.DEFAULT);
            dialog.setSize(computedSize.x + 50, computedSize.y + 50);

            // Center the window relative to the main HDFView window
            Point winCenter = new Point(
                    mainWindow.getBounds().x + (mainWindow.getBounds().width / 2),
                    mainWindow.getBounds().y + (mainWindow.getBounds().height / 2));

            dialog.setLocation(winCenter.x - (dialog.getSize().x / 2), winCenter.y - (dialog.getSize().y / 2));

            dialog.open();

            Display display = getParent().getDisplay();
            while (!dialog.isDisposed()) {
                if (!display.readAndDispatch()) {
                    display.sleep();
                }
            }
        }

        private void createContents(final Shell shell) {
            shell.setLayout(new GridLayout(2, false));

            Image HDFImage = ViewProperties.getLargeHdfIcon();

            Label imageLabel = new Label(shell, SWT.CENTER);
            imageLabel.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, true));
            imageLabel.setImage(HDFImage);

            Label versionLabel = new Label(shell, SWT.CENTER);
            versionLabel.setLayoutData(new GridData(SWT.LEFT, SWT.CENTER, true, false));
            versionLabel.setFont(currentFont);
            versionLabel.setText(message);

            // Draw HDF Icon and Version string
            Composite buttonComposite = new Composite(shell, SWT.NONE);
            buttonComposite.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, false, 2, 1));
            RowLayout buttonLayout = new RowLayout();
            buttonLayout.center = true;
            buttonLayout.justify = true;
            buttonLayout.type = SWT.HORIZONTAL;
            buttonComposite.setLayout(buttonLayout);

            Button okButton = new Button(buttonComposite, SWT.PUSH);
            okButton.setFont(currentFont);
            okButton.setText("   &OK   ");
            shell.setDefaultButton(okButton);
            okButton.addSelectionListener(new SelectionAdapter() {
                @Override
                public void widgetSelected(SelectionEvent e) {
                    shell.dispose();
                }
            });
        }
    }

    private class JavaVersionDialog extends Dialog {
        public JavaVersionDialog(Shell parent) {
            super(parent, SWT.APPLICATION_MODAL | SWT.DIALOG_TRIM);
        }

        public void open() {
            final Shell dialog = new Shell(getParent(), getStyle());
            dialog.setFont(currentFont);
            dialog.setText("HDFView Java Version");
            dialog.setLayout(new GridLayout(2, false));

            Image HDFImage = ViewProperties.getLargeHdfIcon();

            Label imageLabel = new Label(dialog, SWT.CENTER);
            imageLabel.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, true));
            imageLabel.setImage(HDFImage);

            Label versionLabel = new Label(dialog, SWT.CENTER);
            versionLabel.setLayoutData(new GridData(SWT.LEFT, SWT.CENTER, true, false));
            versionLabel.setFont(currentFont);
            versionLabel.setText(JAVA_VER_INFO);

            Composite buttonComposite = new Composite(dialog, SWT.NONE);
            buttonComposite.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, false, 2, 1));
            RowLayout buttonLayout = new RowLayout();
            buttonLayout.center = true;
            buttonLayout.justify = true;
            buttonLayout.type = SWT.HORIZONTAL;
            buttonComposite.setLayout(buttonLayout);

            Button okButton = new Button(buttonComposite, SWT.PUSH);
            okButton.setFont(currentFont);
            okButton.setText("   &OK   ");
            dialog.setDefaultButton(okButton);
            okButton.addSelectionListener(new SelectionAdapter() {
                @Override
                public void widgetSelected(SelectionEvent e) {
                    dialog.dispose();
                }
            });

            dialog.pack();

            Point computedSize = dialog.computeSize(SWT.DEFAULT, SWT.DEFAULT);
            dialog.setSize(computedSize.x + 50, computedSize.y + 50);

            // Center the window relative to the main HDFView window
            Point winCenter = new Point(
                    mainWindow.getBounds().x + (mainWindow.getBounds().width / 2),
                    mainWindow.getBounds().y + (mainWindow.getBounds().height / 2));

            dialog.setLocation(winCenter.x - (dialog.getSize().x / 2), winCenter.y - (dialog.getSize().y / 2));

            dialog.open();

            Display display = getParent().getDisplay();
            while (!dialog.isDisposed()) {
                if (!display.readAndDispatch()) {
                    display.sleep();
                }
            }
        }
    }

    private class SupportedFileFormatsDialog extends Dialog {
        public SupportedFileFormatsDialog(Shell parent) {
            super(parent, SWT.APPLICATION_MODAL | SWT.DIALOG_TRIM);
        }

        public void open() {
            final Shell dialog = new Shell(getParent(), getStyle());
            dialog.setFont(currentFont);
            dialog.setText("Supported File Formats");
            dialog.setLayout(new GridLayout(2, false));

            Enumeration<?> formatKeys = FileFormat.getFileFormatKeys();

            String formats = "\nSupported File Formats: \n";
            while (formatKeys.hasMoreElements()) {
                formats += "    " + formatKeys.nextElement() + "\n";
            }
            formats += "\n";

            Image HDFImage = ViewProperties.getLargeHdfIcon();

            Label imageLabel = new Label(dialog, SWT.CENTER);
            imageLabel.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, true));
            imageLabel.setImage(HDFImage);

            Label formatsLabel = new Label(dialog, SWT.LEFT);
            formatsLabel.setLayoutData(new GridData(SWT.LEFT, SWT.CENTER, true, false));
            formatsLabel.setFont(currentFont);
            formatsLabel.setText(formats);

            Composite buttonComposite = new Composite(dialog, SWT.NONE);
            buttonComposite.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, false, 2, 1));
            RowLayout buttonLayout = new RowLayout();
            buttonLayout.center = true;
            buttonLayout.justify = true;
            buttonLayout.type = SWT.HORIZONTAL;
            buttonComposite.setLayout(buttonLayout);

            Button okButton = new Button(buttonComposite, SWT.PUSH);
            okButton.setFont(currentFont);
            okButton.setText("   &OK   ");
            dialog.setDefaultButton(okButton);
            okButton.addSelectionListener(new SelectionAdapter() {
                @Override
                public void widgetSelected(SelectionEvent e) {
                    dialog.dispose();
                }
            });

            dialog.pack();

            Point computedSize = dialog.computeSize(SWT.DEFAULT, SWT.DEFAULT);
            dialog.setSize(computedSize.x + 50, computedSize.y + 50);

            // Center the window relative to the main HDFView window
            Point winCenter = new Point(
                    mainWindow.getBounds().x + (mainWindow.getBounds().width / 2),
                    mainWindow.getBounds().y + (mainWindow.getBounds().height / 2));

            dialog.setLocation(winCenter.x - (dialog.getSize().x / 2), winCenter.y - (dialog.getSize().y / 2));

            dialog.open();

            Display display = getParent().getDisplay();
            while (!dialog.isDisposed()) {
                if (!display.readAndDispatch()) {
                    display.sleep();
                }
            }
        }
    }

    private class AboutDialog extends Dialog {
        public AboutDialog(Shell parent) {
            super(parent, SWT.APPLICATION_MODAL | SWT.DIALOG_TRIM);
        }

        public void open() {
            final Shell dialog = new Shell(getParent(), getStyle());
            dialog.setFont(currentFont);
            dialog.setText("About HDFView");
            dialog.setLayout(new GridLayout(2, false));

            Image HDFImage = ViewProperties.getLargeHdfIcon();

            Label imageLabel = new Label(dialog, SWT.CENTER);
            imageLabel.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, true));
            imageLabel.setImage(HDFImage);

            Label aboutLabel = new Label(dialog, SWT.LEFT);
            aboutLabel.setLayoutData(new GridData(SWT.LEFT, SWT.CENTER, true, false));
            aboutLabel.setFont(currentFont);
            aboutLabel.setText(aboutHDFView);

            Composite buttonComposite = new Composite(dialog, SWT.NONE);
            buttonComposite.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, false, 2, 1));
            RowLayout buttonLayout = new RowLayout();
            buttonLayout.center = true;
            buttonLayout.justify = true;
            buttonLayout.type = SWT.HORIZONTAL;
            buttonComposite.setLayout(buttonLayout);

            Button okButton = new Button(buttonComposite, SWT.PUSH);
            okButton.setFont(currentFont);
            okButton.setText("   &OK   ");
            dialog.setDefaultButton(okButton);
            okButton.addSelectionListener(new SelectionAdapter() {
                @Override
                public void widgetSelected(SelectionEvent e) {
                    dialog.dispose();
                }
            });

            dialog.pack();

            Point computedSize = dialog.computeSize(SWT.DEFAULT, SWT.DEFAULT);
            dialog.setSize(computedSize.x + 50, computedSize.y + 50);

            // Center the window relative to the main HDFView window
            Point winCenter = new Point(
                    mainWindow.getBounds().x + (mainWindow.getBounds().width / 2),
                    mainWindow.getBounds().y + (mainWindow.getBounds().height / 2));

            dialog.setLocation(winCenter.x - (dialog.getSize().x / 2), winCenter.y - (dialog.getSize().y / 2));

            dialog.open();

            Display display = getParent().getDisplay();
            while (!dialog.isDisposed()) {
                if (!display.readAndDispatch()) {
                    display.sleep();
                }
            }
        }
    }

    private class UnregisterFileFormatDialog extends Dialog {

        private List<Object> keyList;
        private String formatChoice = null;

        public UnregisterFileFormatDialog(Shell parent, int style, List<Object> keyList) {
            super(parent, style);

            this.keyList = keyList;
        }

        public String open() {
            Shell parent = getParent();
            final Shell shell = new Shell(parent, SWT.APPLICATION_MODAL | SWT.DIALOG_TRIM);
            shell.setFont(currentFont);
            shell.setText("Unregister a file format");
            shell.setLayout(new GridLayout(2, false));

            Image HDFImage = ViewProperties.getLargeHdfIcon();

            Label imageLabel = new Label(shell, SWT.CENTER);
            imageLabel.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, true));
            imageLabel.setImage(HDFImage);


            final Combo formatChoiceCombo = new Combo(shell, SWT.SINGLE | SWT.DROP_DOWN | SWT.READ_ONLY);
            formatChoiceCombo.setFont(currentFont);
            formatChoiceCombo.setItems(keyList.toArray(new String[0]));
            formatChoiceCombo.setLayoutData(new GridData(SWT.FILL, SWT.CENTER, true, true));
            formatChoiceCombo.select(0);
            formatChoiceCombo.addSelectionListener(new SelectionAdapter() {
                @Override
                public void widgetSelected(SelectionEvent e) {
                    formatChoice = formatChoiceCombo.getItem(formatChoiceCombo.getSelectionIndex());
                }
            });

            Composite buttonComposite = new Composite(shell, SWT.NONE);
            buttonComposite.setLayout(new GridLayout(2, true));
            buttonComposite.setLayoutData(new GridData(SWT.FILL, SWT.FILL, true, false, 2, 1));

            Button okButton = new Button(buttonComposite, SWT.PUSH);
            okButton.setFont(currentFont);
            okButton.setText("   &OK   ");
            okButton.setLayoutData(new GridData(SWT.END, SWT.FILL, true, false));
            okButton.addSelectionListener(new SelectionAdapter() {
                @Override
                public void widgetSelected(SelectionEvent e) {
                    shell.dispose();
                }
            });

            Button cancelButton = new Button(buttonComposite, SWT.PUSH);
            cancelButton.setFont(currentFont);
            cancelButton.setText(" &Cancel ");
            cancelButton.setLayoutData(new GridData(SWT.BEGINNING, SWT.FILL, true, false));
            cancelButton.addSelectionListener(new SelectionAdapter() {
                @Override
                public void widgetSelected(SelectionEvent e) {
                    shell.dispose();
                }
            });

            shell.pack();

            Point computedSize = shell.computeSize(SWT.DEFAULT, SWT.DEFAULT);
            shell.setSize(computedSize.x + 50, computedSize.y + 50);

            Rectangle parentBounds = parent.getBounds();
            Point shellSize = shell.getSize();
            shell.setLocation((parentBounds.x + (parentBounds.width / 2)) - (shellSize.x / 2),
                    (parentBounds.y + (parentBounds.height / 2)) - (shellSize.y / 2));

            shell.open();

            Display display = parent.getDisplay();
            while(!shell.isDisposed()) {
                if (!display.readAndDispatch())
                    display.sleep();
            }

            return formatChoice;
        }
    }

    /**
     * The starting point of this application.
     *
     * <pre>
     * Usage: java(w)
     *        -Dhdf.hdf5lib.H5.hdf5lib="your HDF5 library path"
     *        -Dhdf.hdflib.HDFLibrary.hdflib="your HDF4 library path"
     *        -root "the directory where the HDFView is installed"
     *        [filename] "the file to open"
     * </pre>
     *
     * @param args  the command line arguments
     */
    public static void main(String[] args) {
        if (display == null || display.isDisposed()) display = new Display();

        String rootDir = System.getProperty("hdfview.workdir");
        log.trace("main: rootDir = {} ", rootDir);
        if(rootDir == null)
            rootDir = System.getProperty("user.dir");

        File tmpFile = null;
        Monitor primaryMonitor = display.getPrimaryMonitor();
        Point margin = new Point(primaryMonitor.getBounds().width,
                primaryMonitor.getBounds().height);

        int j = args.length;
        int W = margin.x / 2;
        int H = margin.y;
        int X = 0;
        int Y = 0;

        for(int i = 0; i < args.length; i++) {
            if ("-root".equalsIgnoreCase(args[i])) {
                j--;
                try {
                    j--;
                    tmpFile = new File(args[++i]);

                    if(tmpFile.isDirectory())
                        rootDir = tmpFile.getPath();
                    else if(tmpFile.isFile())
                        rootDir = tmpFile.getParent();
                }
                catch (Exception ex) {}
            }
            else if("-g".equalsIgnoreCase(args[i]) || "-geometry".equalsIgnoreCase(args[i])) {
                j--;
                // -geometry WIDTHxHEIGHT+XOFF+YOFF
                try {
                    String geom = args[++i];
                    j--;

                    int idx = 0;
                    int idx2 = geom.lastIndexOf('-');
                    int idx3 = geom.lastIndexOf('+');

                    idx = Math.max(idx2, idx3);
                    if(idx > 0) {
                        Y = Integer.parseInt(geom.substring(idx + 1));

                        if(idx == idx2)
                            Y = -Y;

                        geom = geom.substring(0, idx);
                        idx2 = geom.lastIndexOf('-');
                        idx3 = geom.lastIndexOf('+');
                        idx = Math.max(idx2, idx3);

                        if(idx > 0) {
                            X = Integer.parseInt(geom.substring(idx + 1));

                            if(idx == idx2)
                                X = -X;

                            geom = geom.substring(0, idx);
                        }
                    }

                    idx = geom.indexOf('x');

                    if(idx > 0) {
                        W = Integer.parseInt(geom.substring(0, idx));
                        H = Integer.parseInt(geom.substring(idx + 1));
                    }

                }
                catch (Exception ex) {
                    ex.printStackTrace();
                }
            }
            else if("-java.version".equalsIgnoreCase(args[i])) {
                /* Set icon to ViewProperties.getLargeHdfIcon() */
                Tools.showInformation(mainWindow, "Java Version", JAVA_VER_INFO);
                System.exit(0);
            }
        }

        Vector<File> fList = new Vector<>();
        tmpFile = null;

        if(j >= 0) {
            for(int i = args.length - j; i < args.length; i++) {
                tmpFile = new File(args[i]);
                if(!tmpFile.isAbsolute())
                    tmpFile = new File(rootDir, args[i]);
                log.trace("main: filelist - file = {} ", tmpFile.getAbsolutePath());
                log.trace("main: filelist - add file = {} exists={} isFile={} isDir={}", tmpFile, tmpFile.exists(), tmpFile.isFile(), tmpFile.isDirectory());
                if(tmpFile.exists() && (tmpFile.isFile() || tmpFile.isDirectory())) {
                    log.trace("main: flist - add file = {}", tmpFile.getAbsolutePath());
                    fList.add(new File(tmpFile.getAbsolutePath()));
                }
            }
        }

        final Vector<File> the_fList = fList;
        final String the_rootDir = rootDir;
        final int the_X = X, the_Y = Y, the_W = W, the_H = H;

        display.syncExec(new Runnable() {
            @Override
            public void run() {
                HDFView app = new HDFView(the_rootDir);

                // TODO: Look for a better solution to native dialog problem
                app.setTestState(false);

                app.openMainWindow(the_fList, the_W, the_H, the_X, the_Y);
                app.runMainWindow();
            }
        });
    }
}