Example usage for java.awt FileDialog SAVE

List of usage examples for java.awt FileDialog SAVE

Introduction

In this page you can find the example usage for java.awt FileDialog SAVE.

Prototype

int SAVE

To view the source code for java.awt FileDialog SAVE.

Click Source Link

Document

This constant value indicates that the purpose of the file dialog window is to locate a file to which to write.

Usage

From source file:JDAC.JDAC.java

public void exportPNG() {
    DateFormat df = new SimpleDateFormat("ddmmyy_HHmm");

    FileDialog fd = new FileDialog(this, "Export as...", FileDialog.SAVE);

    fd.setFile("Chart_" + df.format(new Date()) + ".png");
    fd.setVisible(true);/*  w  ww  .java2 s . c o  m*/

    if (fd.getFile() == null) {
        setStatus("Export PNG canceled");
        //export canceled
        return;
    }

    mChart.setTitle(currentSensor);

    try {
        ChartUtilities.saveChartAsPNG(new File(fd.getDirectory() + fd.getFile()), mChart,
                Definitions.exportPNGwidth, Definitions.exportPNGheight);
        setStatus("Export PNG successful");
    } catch (IOException e) {
        JOptionPane.showMessageDialog(this, "" + "Error while exporting chart...\n"
                + "If the error persists please contact the system administrator");
        mChart.setTitle(mainChartPreviewTitle);
        return;
    }

    mChart.setTitle(mainChartPreviewTitle);
}

From source file:edu.ku.brc.specify.tasks.services.PickListUtils.java

/**
 * @param localizableIO// w w  w.j  a va 2 s .  c  om
 * @param hash HashSet of names of picklists to be pre-selected (can be null)
 */
public static void exportPickList(final LocalizableIOIFace localizableIO, final HashSet<String> hash) {
    // Cancel is Export All PickLists

    List<PickList> items = getPickLists(localizableIO, true, false);
    List<PickList> selectedItems = new ArrayList<PickList>();
    if (hash != null) {
        for (PickList pl : items) {
            if (hash.contains(pl.getName())) {
                selectedItems.add(pl);
            }
        }
    }

    Window window = UIRegistry.getTopWindow();
    boolean isDialog = window instanceof Dialog;

    ToggleButtonChooserDlg<PickList> pickDlg;
    if (isDialog) {
        pickDlg = new ToggleButtonChooserDlg<PickList>((Dialog) window, getI18n("PL_EXPORT"), items);
    } else {
        pickDlg = new ToggleButtonChooserDlg<PickList>((JFrame) window, getI18n("PL_EXPORT"), items);
    }

    pickDlg.setUseScrollPane(true);
    pickDlg.setAddSelectAll(true);
    pickDlg.createUI();
    pickDlg.setSelectedObjects(selectedItems);
    UIHelper.centerAndShow(pickDlg);

    Integer cnt = null;
    if (!pickDlg.isCancelled()) {
        items = pickDlg.getSelectedObjects();

        String dlgTitle = getResourceString(getI18n("RIE_ExportResource"));

        FileDialog dlg;
        if (isDialog) {
            dlg = new FileDialog((Dialog) window, dlgTitle, FileDialog.SAVE);
        } else {
            dlg = new FileDialog((Frame) window, dlgTitle, FileDialog.SAVE);
        }
        dlg.setDirectory(UIRegistry.getUserHomeDir());
        dlg.setFile(getPickListXMLName());

        UIHelper.centerAndShow(dlg);

        String dirStr = dlg.getDirectory();
        String fileName = dlg.getFile();

        if (StringUtils.isNotEmpty(dirStr) && StringUtils.isNotEmpty(fileName)) {
            String ext = FilenameUtils.getExtension(fileName);
            if (StringUtils.isEmpty(ext) || !ext.equalsIgnoreCase("xml")) {
                fileName += ".xml";
            }

            try {
                File xmlFile = new File(dirStr + File.separator + fileName);

                ArrayList<BldrPickList> bldrPickLists = new ArrayList<BldrPickList>();
                for (PickList pl : items) {
                    bldrPickLists.add(new BldrPickList(pl));
                }
                DataBuilder.writePickListsAsXML(xmlFile, bldrPickLists);
                cnt = bldrPickLists.size();

            } catch (Exception ex) {
                ex.printStackTrace();
            }
            UIRegistry.displayInfoMsgDlgLocalized(getI18n(cnt != null ? "PL_WASEXPORT" : "PL_ERR_IMP"), cnt);
        }
    }
}

From source file:edu.ku.brc.specify.tools.schemalocale.SchemaLocalizerFrame.java

/**
 * Export data /*from  w ww  .  ja  v a  2  s.  c o  m*/
 */
protected void exportSingleLocale() {
    statusBar.setText(getResourceString("SchemaLocalizerFrame.EXPORTING")); //$NON-NLS-1$
    statusBar.paintImmediately(statusBar.getBounds());

    schemaLocPanel.getAllDataFromUI();

    if (localizableIO.hasChanged()) {
        if (UIRegistry.askYesNoLocalized("SAVE", "CANCEL",
                UIRegistry.getResourceString("SchemaLocalizerFrame.NEEDS_SAVING"),
                "SAVE") == JOptionPane.YES_NO_OPTION) {
            localizableIO.save();
        } else {
            return;
        }
    }

    Vector<Locale> stdLocales = SchemaI18NService.getInstance().getStdLocaleList(false);
    final JList list = new JList(stdLocales);
    list.setCellRenderer(new DefaultListCellRenderer() {
        @Override
        public Component getListCellRendererComponent(JList list, Object value, int index, boolean isSelected,
                boolean cellHasFocus) {
            super.getListCellRendererComponent(list, value, index, isSelected, cellHasFocus);
            if (value != null) {
                setText(((Locale) value).getDisplayName());
            }
            return this;
        }
    });

    PanelBuilder pb = new PanelBuilder(new FormLayout("f:p:g", "f:p:g"));
    pb.add(UIHelper.createScrollPane(list), (new CellConstraints()).xy(1, 1));
    pb.setDefaultDialogBorder();

    final CustomDialog dlg = new CustomDialog((Frame) UIRegistry.getTopWindow(),
            getResourceString("SchemaLocalizerFrame.CHOOSE_LOCALE"), true, pb.getPanel());
    list.addListSelectionListener(new ListSelectionListener() {
        @Override
        public void valueChanged(ListSelectionEvent e) {
            if (!e.getValueIsAdjusting()) {
                dlg.getOkBtn().setEnabled(list.getSelectedValue() != null);
            }
        }
    });
    dlg.createUI();
    dlg.getOkBtn().setEnabled(false);

    UIHelper.centerAndShow(dlg);
    if (!dlg.isCancelled()) {
        Locale locale = (Locale) list.getSelectedValue();
        if (locale != null) {
            FileDialog fileDlg = new FileDialog((Frame) UIRegistry.getTopWindow(),
                    getResourceString("SchemaLocalizerFrame.SVFILENAME"), FileDialog.SAVE);
            fileDlg.setVisible(true);
            String fileName = fileDlg.getFile();
            if (StringUtils.isNotEmpty(fileName)) {
                File outFile = new File(fileDlg.getDirectory() + File.separator + fileName);
                boolean savedOK = localizableIO.exportSingleLanguageToDirectory(outFile, locale);
                if (savedOK) {
                    String msg = UIRegistry.getLocalizedMessage("SchemaLocalizerFrame.EXPORTEDTO",
                            locale.getDisplayName(), outFile.getAbsolutePath());
                    UIRegistry.displayInfoMsgDlg(msg);
                } else {
                    String msg = UIRegistry.getLocalizedMessage("SchemaLocalizerFrame.EXPORTING_ERR",
                            outFile.getAbsolutePath());
                    UIRegistry.showError(msg);
                }

            }
        }
    }
}

From source file:sim.util.media.chart.ChartGenerator.java

/** Generates a new ChartGenerator with a blank chart.  Before anything else, buildChart() is called.  */
public ChartGenerator() {
    // create the chart
    buildChart();/*from   w  ww  .j a  v  a  2s  . c  o m*/
    chart.getPlot().setBackgroundPaint(Color.WHITE);
    chart.setAntiAlias(true);

    JSplitPane split = new JSplitPane(JSplitPane.HORIZONTAL_SPLIT, true);
    split.setBorder(new EmptyBorder(0, 0, 0, 0));
    JScrollPane scroll = new JScrollPane();
    JPanel b = new JPanel();
    b.setLayout(new BorderLayout());
    b.add(seriesAttributes, BorderLayout.NORTH);
    b.add(new JPanel(), BorderLayout.CENTER);
    scroll.getViewport().setView(b);
    scroll.setBackground(getBackground());
    scroll.getViewport().setBackground(getBackground());
    JPanel p = new JPanel();
    p.setLayout(new BorderLayout());

    LabelledList list = new LabelledList("Chart Properties");
    DisclosurePanel pan1 = new DisclosurePanel("Chart Properties", list);
    globalAttributes.add(pan1);

    JLabel j = new JLabel("Right-Click or Control-Click");
    j.setFont(j.getFont().deriveFont(10.0f).deriveFont(java.awt.Font.ITALIC));
    list.add(j);
    j = new JLabel("on Chart for More Options");
    j.setFont(j.getFont().deriveFont(10.0f).deriveFont(java.awt.Font.ITALIC));
    list.add(j);

    titleField = new PropertyField() {
        public String newValue(String newValue) {
            setTitle(newValue);
            getChartPanel().repaint();
            return newValue;
        }
    };
    titleField.setValue(chart.getTitle().getText());

    list.add(new JLabel("Title"), titleField);

    buildGlobalAttributes(list);

    final JCheckBox legendCheck = new JCheckBox();
    ItemListener il = new ItemListener() {
        public void itemStateChanged(ItemEvent e) {
            if (e.getStateChange() == ItemEvent.SELECTED) {
                LegendTitle title = new LegendTitle(chart.getPlot());
                title.setLegendItemGraphicPadding(new org.jfree.ui.RectangleInsets(0, 8, 0, 4));
                chart.addLegend(title);
            } else {
                chart.removeLegend();
            }
        }
    };
    legendCheck.addItemListener(il);
    list.add(new JLabel("Legend"), legendCheck);
    legendCheck.setSelected(true);

    /*
      final JCheckBox aliasCheck = new JCheckBox();
      aliasCheck.setSelected(chart.getAntiAlias());
      il = new ItemListener()
      {
      public void itemStateChanged(ItemEvent e)
      {
      chart.setAntiAlias( e.getStateChange() == ItemEvent.SELECTED );
      }
      };
      aliasCheck.addItemListener(il);
      list.add(new JLabel("Antialias"), aliasCheck);
    */

    JPanel pdfButtonPanel = new JPanel();
    pdfButtonPanel.setBorder(new javax.swing.border.TitledBorder("Chart Output"));
    DisclosurePanel pan2 = new DisclosurePanel("Chart Output", pdfButtonPanel);

    pdfButtonPanel.setLayout(new BorderLayout());
    Box pdfbox = new Box(BoxLayout.Y_AXIS);
    pdfButtonPanel.add(pdfbox, BorderLayout.WEST);

    JButton pdfButton = new JButton("Save as PDF");
    pdfbox.add(pdfButton);
    pdfButton.addActionListener(new ActionListener() {
        public void actionPerformed(ActionEvent e) {
            FileDialog fd = new FileDialog(frame, "Choose PDF file...", FileDialog.SAVE);
            fd.setFile(chart.getTitle().getText() + ".pdf");
            fd.setVisible(true);
            String fileName = fd.getFile();
            if (fileName != null) {
                Dimension dim = chartPanel.getPreferredSize();
                PDFEncoder.generatePDF(chart, dim.width, dim.height,
                        new File(fd.getDirectory(), Utilities.ensureFileEndsWith(fd.getFile(), ".pdf")));
            }
        }
    });
    movieButton = new JButton("Create a Movie");
    pdfbox.add(movieButton);
    pdfbox.add(Box.createGlue());
    movieButton.addActionListener(new ActionListener() {
        public void actionPerformed(ActionEvent e) {
            if (movieMaker == null)
                startMovie();
            else
                stopMovie();
        }
    });

    globalAttributes.add(pan2);

    // we add into an outer box so we can later on add more global seriesAttributes
    // as the user instructs and still have glue be last
    Box outerAttributes = Box.createVerticalBox();
    outerAttributes.add(globalAttributes);
    outerAttributes.add(Box.createGlue());

    p.add(outerAttributes, BorderLayout.NORTH);
    p.add(scroll, BorderLayout.CENTER);
    p.setMinimumSize(new Dimension(0, 0));
    p.setPreferredSize(new Dimension(200, 0));
    split.setLeftComponent(p);

    // Add scale and proportion fields
    Box header = Box.createHorizontalBox();

    final double MAXIMUM_SCALE = 8;

    fixBox = new JCheckBox("Fill");
    fixBox.addActionListener(new ActionListener() {
        public void actionPerformed(ActionEvent e) {
            setFixed(fixBox.isSelected());
        }
    });
    header.add(fixBox);
    fixBox.setSelected(true);

    // add the scale field
    scaleField = new NumberTextField("  Scale: ", 1.0, true) {
        public double newValue(double newValue) {
            if (newValue <= 0.0)
                newValue = currentValue;
            if (newValue > MAXIMUM_SCALE)
                newValue = currentValue;
            scale = newValue;
            resizeChart();
            return newValue;
        }
    };
    scaleField.setToolTipText("Zoom in and out");
    scaleField.setBorder(BorderFactory.createEmptyBorder(0, 0, 0, 2));
    scaleField.setEnabled(false);
    scaleField.setText("");
    header.add(scaleField);

    // add the proportion field
    proportionField = new NumberTextField("  Proportion: ", 1.5, true) {
        public double newValue(double newValue) {
            if (newValue <= 0.0)
                newValue = currentValue;
            proportion = newValue;
            resizeChart();
            return newValue;
        }
    };
    proportionField.setToolTipText("Change the chart proportions (ratio of width to height)");
    proportionField.setBorder(BorderFactory.createEmptyBorder(0, 0, 0, 2));
    header.add(proportionField);

    chartHolder.setMinimumSize(new Dimension(0, 0));
    chartHolder.setHorizontalScrollBarPolicy(ScrollPaneConstants.HORIZONTAL_SCROLLBAR_NEVER);
    chartHolder.setVerticalScrollBarPolicy(ScrollPaneConstants.VERTICAL_SCROLLBAR_ALWAYS);
    chartHolder.getViewport().setBackground(Color.gray);
    JPanel p2 = new JPanel();
    p2.setLayout(new BorderLayout());
    p2.add(chartHolder, BorderLayout.CENTER);
    p2.add(header, BorderLayout.NORTH);
    split.setRightComponent(p2);
    setLayout(new BorderLayout());
    add(split, BorderLayout.CENTER);

    // set the default to be white, which looks good when printed
    chart.setBackgroundPaint(Color.WHITE);

    // JFreeChart has a hillariously broken way of handling font scaling.
    // It allows fonts to scale independently in X and Y.  We hack a workaround here.
    chartPanel.setMinimumDrawHeight((int) DEFAULT_CHART_HEIGHT);
    chartPanel.setMaximumDrawHeight((int) DEFAULT_CHART_HEIGHT);
    chartPanel.setMinimumDrawWidth((int) (DEFAULT_CHART_HEIGHT * proportion));
    chartPanel.setMaximumDrawWidth((int) (DEFAULT_CHART_HEIGHT * proportion));
    chartPanel.setPreferredSize(new java.awt.Dimension((int) (DEFAULT_CHART_HEIGHT * DEFAULT_CHART_PROPORTION),
            (int) (DEFAULT_CHART_HEIGHT)));
}

From source file:edu.gmu.cs.sim.util.media.chart.ChartGenerator.java

/** Generates a new ChartGenerator with a blank chart.  Before anything else, buildChart() is called.  */
public ChartGenerator() {
    // create the chart
    buildChart();//from   w  ww. j  a v a 2  s .  co m
    chart.getPlot().setBackgroundPaint(Color.WHITE);
    chart.setAntiAlias(true);

    JSplitPane split = new JSplitPane(JSplitPane.HORIZONTAL_SPLIT, true);
    split.setBorder(new EmptyBorder(0, 0, 0, 0));
    JScrollPane scroll = new JScrollPane();
    JPanel b = new JPanel();
    b.setLayout(new BorderLayout());
    b.add(seriesAttributes, BorderLayout.NORTH);
    b.add(new JPanel(), BorderLayout.CENTER);
    scroll.getViewport().setView(b);
    scroll.setBackground(getBackground());
    scroll.getViewport().setBackground(getBackground());
    JPanel p = new JPanel();
    p.setLayout(new BorderLayout());

    LabelledList list = new LabelledList("Chart Properties");
    DisclosurePanel pan1 = new DisclosurePanel("Chart Properties", list);
    globalAttributes.add(pan1);

    JLabel j = new JLabel("Right-Click or Control-Click");
    j.setFont(j.getFont().deriveFont(10.0f).deriveFont(java.awt.Font.ITALIC));
    list.add(j);
    j = new JLabel("on Chart for More Options");
    j.setFont(j.getFont().deriveFont(10.0f).deriveFont(java.awt.Font.ITALIC));
    list.add(j);

    titleField = new PropertyField() {
        public String newValue(String newValue) {
            setTitle(newValue);
            getChartPanel().repaint();
            return newValue;
        }
    };
    titleField.setValue(chart.getTitle().getText());

    list.add(new JLabel("Title"), titleField);

    buildGlobalAttributes(list);

    final JCheckBox legendCheck = new JCheckBox();
    ItemListener il = new ItemListener() {
        public void itemStateChanged(ItemEvent e) {
            if (e.getStateChange() == ItemEvent.SELECTED) {
                LegendTitle title = new LegendTitle(chart.getPlot());
                title.setLegendItemGraphicPadding(new org.jfree.ui.RectangleInsets(0, 8, 0, 4));
                chart.addLegend(title);
            } else {
                chart.removeLegend();
            }
        }
    };
    legendCheck.addItemListener(il);
    list.add(new JLabel("Legend"), legendCheck);
    legendCheck.setSelected(true);

    /*
      final JCheckBox aliasCheck = new JCheckBox();
      aliasCheck.setSelected(chart.getAntiAlias());
      il = new ItemListener()
      {
      public void itemStateChanged(ItemEvent e)
      {
      chart.setAntiAlias( e.getStateChange() == ItemEvent.SELECTED );
      }
      };
      aliasCheck.addItemListener(il);
      list.add(new JLabel("Antialias"), aliasCheck);
    */

    JPanel pdfButtonPanel = new JPanel();
    pdfButtonPanel.setBorder(new javax.swing.border.TitledBorder("Chart Output"));
    DisclosurePanel pan2 = new DisclosurePanel("Chart Output", pdfButtonPanel);

    pdfButtonPanel.setLayout(new BorderLayout());
    Box pdfbox = new Box(BoxLayout.Y_AXIS);
    pdfButtonPanel.add(pdfbox, BorderLayout.WEST);

    JButton pdfButton = new JButton("Save as PDF");
    pdfbox.add(pdfButton);
    pdfButton.addActionListener(new ActionListener() {
        public void actionPerformed(ActionEvent e) {
            FileDialog fd = new FileDialog(frame, "Choose PDF file...", FileDialog.SAVE);
            fd.setFile(chart.getTitle().getText() + ".pdf");
            fd.setVisible(true);
            String fileName = fd.getFile();
            if (fileName != null) {
                Dimension dim = chartPanel.getPreferredSize();
                PDFEncoder.generatePDF(chart, dim.width, dim.height,
                        new File(fd.getDirectory(), Utilities.ensureFileEndsWith(fd.getFile(), ".pdf")));
            }
        }
    });
    movieButton = new JButton("Create a Movie");
    pdfbox.add(movieButton);
    pdfbox.add(Box.createGlue());
    movieButton.addActionListener(new ActionListener() {
        public void actionPerformed(ActionEvent e) {
            if (movieMaker == null) {
                startMovie();
            } else {
                stopMovie();
            }
        }
    });

    globalAttributes.add(pan2);

    // we add into an outer box so we can later on add more global seriesAttributes
    // as the user instructs and still have glue be last
    Box outerAttributes = Box.createVerticalBox();
    outerAttributes.add(globalAttributes);
    outerAttributes.add(Box.createGlue());

    p.add(outerAttributes, BorderLayout.NORTH);
    p.add(scroll, BorderLayout.CENTER);
    p.setMinimumSize(new Dimension(0, 0));
    p.setPreferredSize(new Dimension(200, 0));
    split.setLeftComponent(p);

    // Add scale and proportion fields
    Box header = Box.createHorizontalBox();

    final double MAXIMUM_SCALE = 8;

    fixBox = new JCheckBox("Fill");
    fixBox.addActionListener(new ActionListener() {
        public void actionPerformed(ActionEvent e) {
            setFixed(fixBox.isSelected());
        }
    });
    header.add(fixBox);
    fixBox.setSelected(true);

    // add the scale field
    scaleField = new NumberTextField("  Scale: ", 1.0, true) {
        public double newValue(double newValue) {
            if (newValue <= 0.0) {
                newValue = currentValue;
            }
            if (newValue > MAXIMUM_SCALE) {
                newValue = currentValue;
            }
            scale = newValue;
            resizeChart();
            return newValue;
        }
    };
    scaleField.setToolTipText("Zoom in and out");
    scaleField.setBorder(BorderFactory.createEmptyBorder(0, 0, 0, 2));
    scaleField.setEnabled(false);
    scaleField.setText("");
    header.add(scaleField);

    // add the proportion field
    proportionField = new NumberTextField("  Proportion: ", 1.5, true) {
        public double newValue(double newValue) {
            if (newValue <= 0.0) {
                newValue = currentValue;
            }
            proportion = newValue;
            resizeChart();
            return newValue;
        }
    };
    proportionField.setToolTipText("Change the chart proportions (ratio of width to height)");
    proportionField.setBorder(BorderFactory.createEmptyBorder(0, 0, 0, 2));
    header.add(proportionField);

    chartHolder.setMinimumSize(new Dimension(0, 0));
    chartHolder.setHorizontalScrollBarPolicy(ScrollPaneConstants.HORIZONTAL_SCROLLBAR_NEVER);
    chartHolder.setVerticalScrollBarPolicy(ScrollPaneConstants.VERTICAL_SCROLLBAR_ALWAYS);
    chartHolder.getViewport().setBackground(Color.gray);
    JPanel p2 = new JPanel();
    p2.setLayout(new BorderLayout());
    p2.add(chartHolder, BorderLayout.CENTER);
    p2.add(header, BorderLayout.NORTH);
    split.setRightComponent(p2);
    setLayout(new BorderLayout());
    add(split, BorderLayout.CENTER);

    // set the default to be white, which looks good when printed
    chart.setBackgroundPaint(Color.WHITE);

    // JFreeChart has a hillariously broken way of handling font scaling.
    // It allows fonts to scale independently in X and Y.  We hack a workaround here.
    chartPanel.setMinimumDrawHeight((int) DEFAULT_CHART_HEIGHT);
    chartPanel.setMaximumDrawHeight((int) DEFAULT_CHART_HEIGHT);
    chartPanel.setMinimumDrawWidth((int) (DEFAULT_CHART_HEIGHT * proportion));
    chartPanel.setMaximumDrawWidth((int) (DEFAULT_CHART_HEIGHT * proportion));
    chartPanel.setPreferredSize(new java.awt.Dimension((int) (DEFAULT_CHART_HEIGHT * DEFAULT_CHART_PROPORTION),
            (int) (DEFAULT_CHART_HEIGHT)));
}

From source file:edu.ku.brc.specify.config.ResourceImportExportDlg.java

/**
 * /*from  ww  w . j a v  a  2  s  .c om*/
 */
protected void exportResource() {

    int index = levelCBX.getSelectedIndex();
    if (index > -1) {
        String exportedName = null;

        String data = null;
        String fileName = null;
        AppResourceIFace appRes = null;
        if (tabbedPane.getSelectedComponent() == viewsPanel) {
            if (viewSetsList.getSelectedIndex() > -1) {
                SpViewSetObj vso = (SpViewSetObj) viewSetsList.getSelectedValue();
                exportedName = vso.getName();
                fileName = FilenameUtils.getName(vso.getFileName());
                data = vso.getDataAsString(true);
            }
        } else {
            JList theList = tabbedPane.getSelectedComponent() == repPanel ? repList : resList;
            if (theList.getSelectedIndex() > 0) {
                appRes = (AppResourceIFace) theList.getSelectedValue();
                exportedName = appRes.getName();
                fileName = FilenameUtils.getName(exportedName);
                data = appRes.getDataAsString();

            }
        }

        if (StringUtils.isNotEmpty(data)) {
            final String EXP_DIR_PREF = "RES_LAST_EXPORT_DIR";
            String initalExportDir = AppPreferences.getLocalPrefs().get(EXP_DIR_PREF, getUserHomeDir());

            FileDialog fileDlg = new FileDialog(this, getResourceString("RIE_ExportResource"), FileDialog.SAVE);

            File expDir = new File(initalExportDir);
            if (StringUtils.isNotEmpty(initalExportDir) && expDir.exists()) {
                fileDlg.setDirectory(initalExportDir);
            }

            fileDlg.setFile(fileName);

            UIHelper.centerAndShow(fileDlg);

            String dirStr = fileDlg.getDirectory();
            fileName = fileDlg.getFile();

            if (StringUtils.isNotEmpty(dirStr) && StringUtils.isNotEmpty(fileName)) {
                AppPreferences.getLocalPrefs().put(EXP_DIR_PREF, dirStr);

                File expFile = new File(dirStr + File.separator + fileName);
                try {
                    if (isReportResource((SpAppResource) appRes)
                            && isSpReportResource((SpAppResource) appRes)) {
                        writeSpReportResToZipFile(expFile, data, appRes);
                    } else {
                        FileUtils.writeStringToFile(expFile, data);
                    }

                } catch (FileNotFoundException ex) {
                    showLocalizedMsg("RIE_NOFILEPERM");

                } catch (Exception ex) {
                    ex.printStackTrace();
                    edu.ku.brc.af.core.UsageTracker.incrHandledUsageCount();
                    edu.ku.brc.exceptions.ExceptionTracker.getInstance().capture(ResourceImportExportDlg.class,
                            ex);
                }
            }
        }

        if (exportedName != null) {
            getStatusBar().setText(getLocalizedMessage("RIE_RES_EXPORTED", exportedName));
        }
    }
}

From source file:edu.ku.brc.specify.tasks.QueryTask.java

/**
 * /*from  ww w.j  av  a  2  s . c  o m*/
 */
protected void exportQueries() {
    UsageTracker.incrUsageCount(getExportUsageKey());
    Vector<String> list = new Vector<String>();
    for (NavBoxItemIFace nbi : navBox.getItems()) {
        list.add(nbi.getTitle());
    }

    List<String> selectedList = null;
    if (list.size() == 0) {
        UIRegistry.showLocalizedMsg(getNothingToExporti18nKey());
        return;
    }
    if (list.size() == 1) {
        selectedList = list;
    } else {
        ToggleButtonChooserDlg<String> dlg = new ToggleButtonChooserDlg<String>(
                (Frame) UIRegistry.getMostRecentWindow(), getExportDlgTitlei18nKey(), getExportDlgMsgi18nKey(),
                list, CustomDialog.OKCANCELHELP, ToggleButtonChooserPanel.Type.Checkbox);
        dlg.setAddSelectAll(true);
        dlg.setUseScrollPane(true);
        dlg.setHelpContext(getExportHelpContext());
        UIHelper.centerAndShow(dlg);
        selectedList = dlg.getSelectedObjects();
        if (dlg.isCancelled() || selectedList.size() == 0) {
            return;
        }
    }

    String path = AppPreferences.getLocalPrefs().get(XML_PATH_PREF, null);

    FileDialog fDlg = new FileDialog(((Frame) UIRegistry.getTopWindow()), UIRegistry.getResourceString("SAVE"),
            FileDialog.SAVE);
    if (path != null) {
        fDlg.setDirectory(path);
    }
    fDlg.setVisible(true);

    String dirStr = fDlg.getDirectory();
    String fileName = fDlg.getFile();
    if (StringUtils.isEmpty(dirStr) || StringUtils.isEmpty(fileName)) {
        return;
    }

    if (StringUtils.isEmpty(FilenameUtils.getExtension(fileName))) {
        fileName += ".xml";
    }
    path = dirStr + fileName;
    AppPreferences.getLocalPrefs().put(XML_PATH_PREF, path);

    Hashtable<String, Boolean> hash = new Hashtable<String, Boolean>();
    for (String qTitle : selectedList) {
        hash.put(qTitle, true);
    }

    Vector<SpQuery> queries = new Vector<SpQuery>();

    // Persist out to database
    DataProviderSessionIFace session = null;
    try {
        session = DataProviderFactory.getInstance().createSession();
        for (NavBoxItemIFace nbi : navBox.getItems()) {
            if (hash.get(nbi.getTitle()) != null) {
                RecordSetIFace rs = (RecordSetIFace) nbi.getData();
                if (rs != null) {
                    SpQuery query = session.get(SpQuery.class, rs.getOnlyItem().getRecordId());
                    queries.add(query);
                }
            }
        }

        StringBuilder sb = new StringBuilder();
        sb.append(getXMLExportFirstLine());
        for (SpQuery q : queries) {
            q.toXML(sb);
        }
        sb.append(getXMLExportLastLine());
        FileUtils.writeStringToFile(new File(path), sb.toString());

    } catch (Exception ex) {
        edu.ku.brc.af.core.UsageTracker.incrHandledUsageCount();
        edu.ku.brc.exceptions.ExceptionTracker.getInstance().capture(QueryTask.class, ex);
        // XXX Error dialog
        ex.printStackTrace();
    } finally {
        if (session != null) {
            session.close();
        }
    }
}

From source file:base.BasePlayer.Main.java

public void actionPerformed(ActionEvent e) {
    //Logo.frame.setVisible(false);
    if (e.getSource() == pleiadesButton) {
        gotoURL("http://kaptah.local.lab.helsinki.fi/pleiades/");

    } else if (e.getSource() == manage) {

        if (VariantHandler.frame == null) {
            VariantHandler.main(argsit);
        }//w ww  .  j  a va 2s. c  o  m
        VariantHandler.frame.setLocation(
                frame.getLocationOnScreen().x + frame.getWidth() / 2 - VariantHandler.frame.getWidth() / 2,
                frame.getLocationOnScreen().y + frame.getHeight() / 6);

        VariantHandler.frame.setState(JFrame.NORMAL);
        VariantHandler.frame.setVisible(true);
        Draw.calculateVars = true;
        Draw.updatevars = true;
        drawCanvas.repaint();

    } else if (e.getSource() == tbrowser) {
        tablebrowser.frame.setLocation(
                frame.getLocationOnScreen().x + frame.getWidth() / 2 - VariantCaller.frame.getWidth() / 2,
                frame.getLocationOnScreen().y + frame.getHeight() / 6);
        tablebrowser.frame.setState(JFrame.NORMAL);

        tablebrowser.frame.setVisible(true);
    } else if (e.getSource() == bconvert) {
        bedconverter.frame.setLocation(
                frame.getLocationOnScreen().x + frame.getWidth() / 2 - VariantCaller.frame.getWidth() / 2,
                frame.getLocationOnScreen().y + frame.getHeight() / 6);
        bedconverter.frame.setState(JFrame.NORMAL);

        bedconverter.frame.setVisible(true);
    } else if (e.getSource() == peakCaller) {
        if (PeakCaller.frame == null) {

            PeakCaller.main(argsit);

        }
        PeakCaller.frame.setLocation(
                frame.getLocationOnScreen().x + frame.getWidth() / 2 - VariantCaller.frame.getWidth() / 2,
                frame.getLocationOnScreen().y + frame.getHeight() / 6);
        PeakCaller.frame.setState(JFrame.NORMAL);
        PeakCaller.frame.setVisible(true);
    } else if (e.getSource() == variantCaller) {

        //FileRead.checkSamples();

        if (VariantCaller.frame == null) {

            VariantCaller.main(argsit);

        }
        VariantCaller.frame.setLocation(
                frame.getLocationOnScreen().x + frame.getWidth() / 2 - VariantCaller.frame.getWidth() / 2,
                frame.getLocationOnScreen().y + frame.getHeight() / 6);
        VariantCaller.frame.setState(JFrame.NORMAL);
        VariantCaller.frame.setVisible(true);
    } else if (e.getSource() == average) {
        if (Average.frame == null) {
            Average.createAndShowGUI();
        }
        Average.setSamples();

        Average.frame.setLocation(
                frame.getLocationOnScreen().x + frame.getWidth() / 2 - Average.frame.getWidth() / 2,
                frame.getLocationOnScreen().y + frame.getHeight() / 6);

        Average.frame.setState(JFrame.NORMAL);
        Average.frame.setVisible(true);
    } else if (e.getSource() == errorlog) {

        ErrorLog.frame.setLocation(
                frame.getLocationOnScreen().x + frame.getWidth() / 2 - ErrorLog.frame.getWidth() / 2,
                frame.getLocationOnScreen().y + frame.getHeight() / 6);

        //      VariantHandler.frame.setAlwaysOnTop(true);   
        ErrorLog.frame.setState(JFrame.NORMAL);
        ErrorLog.frame.setVisible(true);

    }
    /*   else if(e.getSource() == help) {
          JOptionPane.showMessageDialog(Main.chromDraw, "This is pre-release version of BasePlayer\nContact: help@baseplayer.fi\nUniversity of Helsinki", "Help", JOptionPane.INFORMATION_MESSAGE);
       }*/
    else if (e.getSource() == settings) {

        Settings.frame.setLocation(
                frame.getLocationOnScreen().x + frame.getWidth() / 2 - Settings.frame.getWidth() / 2,
                frame.getLocationOnScreen().y + frame.getHeight() / 6);

        Settings.frame.setState(JFrame.NORMAL);
        Settings.frame.setVisible(true);
    } else if (e.getSource() == update) {
        try {
            Updater update = new Updater();
            update.execute();

        } catch (Exception ex) {
            ex.printStackTrace();
        }

    } else if (e.getSource() == clearMemory) {
        FileRead.nullifyVarNodes();

        //FileRead.removeNonListVariants();f
        System.gc();
        chromDraw.repaint();
    } else if (e.getSource() == zoomout) {

        zoomout();
    } else if (e.getSource() == dosomething) {

        BedNode currentbed = bedCanvas.bedTrack.get(0).getHead().getNext();
        VarNode currentvar = FileRead.head.getNext();

        while (currentbed != null) {

            while (currentvar != null && currentvar.getPosition() < currentbed.getPosition()) {
                currentvar = currentvar.getNext();
            }
            while (currentbed != null
                    && currentvar.getPosition() > currentbed.getPosition() + currentbed.getLength()) {
                currentbed = currentbed.getNext();
            }

            if (currentvar != null && currentvar.getPosition() >= currentbed.getPosition()
                    && currentvar.getPosition() < currentbed.getPosition() + currentbed.getLength()) {
                currentvar.setBedhit(true);
                currentvar = currentvar.getNext();
            }
            if (currentvar == null) {
                break;
            }
            currentbed = currentbed.getNext();
        }

    } else if (e.getSource() == clear) {
        clearData();
    } else if (e.getSource() == exit) {

        System.exit(0);
    } else if (e.getSource() == openbams) {
        try {
            if (!checkGenome())
                return;
            if (VariantHandler.frame != null) {
                VariantHandler.frame.setState(Frame.ICONIFIED);
            }

            FileDialog fc = new FileDialog(frame, "Choose BAM file(s)", FileDialog.LOAD);
            fc.setDirectory(path);
            fc.setFile("*.bam;*.cram;*.link");
            fc.setFilenameFilter(new FilenameFilter() {
                public boolean accept(File dir, String name) {
                    return name.toLowerCase().endsWith(".bam") || name.toLowerCase().endsWith(".cram")
                            || name.toLowerCase().endsWith(".link");
                }
            });
            fc.setMultipleMode(true);
            fc.setVisible(true);
            File[] openfiles = fc.getFiles();

            if (openfiles != null && openfiles.length > 0) {

                path = openfiles[0].getParent();
                writeToConfig("DefaultDir=" + path);
                FileRead filereader = new FileRead(openfiles);

                filereader.start = (int) drawCanvas.selectedSplit.start;
                filereader.end = (int) drawCanvas.selectedSplit.end;
                filereader.readBAM = true;
                filereader.execute();

            } else {
                //Main.showError("File(s) does not exist.", "Error");
            }

        } catch (Exception ex) {
            Main.showError(ex.getMessage(), "Error");
        }
    } else if (e.getSource() == openvcfs) {
        try {
            if (!checkGenome())
                return;
            if (VariantHandler.frame != null) {
                VariantHandler.frame.setState(Frame.ICONIFIED);
            }

            FileDialog fc = new FileDialog(frame, "Choose VCF file(s)", FileDialog.LOAD);
            fc.setDirectory(path);
            fc.setFile("*.vcf");
            fc.setFilenameFilter(new FilenameFilter() {
                public boolean accept(File dir, String name) {
                    return name.toLowerCase().endsWith(".vcf") || name.toLowerCase().endsWith(".vcf.gz");
                }
            });

            fc.setMultipleMode(true);
            fc.setVisible(true);
            File[] openfiles = fc.getFiles();

            if (openfiles != null && openfiles.length > 0) {

                path = openfiles[0].getParent();
                writeToConfig("DefaultDir=" + path);
                FileRead filereader = new FileRead(openfiles);

                filereader.start = (int) drawCanvas.selectedSplit.start;
                filereader.end = (int) drawCanvas.selectedSplit.end;
                filereader.readVCF = true;
                filereader.execute();

            } else {
                //Main.showError("File(s) does not exist.", "Error");
            }

            if (1 == 1) {
                return;
            }

            JFileChooser chooser = new JFileChooser(path);
            getText(chooser.getComponents());
            chooser.setMultiSelectionEnabled(true);
            //chooser.setFileSelectionMode(JFileChooser.FILES_AND_DIRECTORIES);
            chooser.setFileSelectionMode(JFileChooser.FILES_ONLY);
            chooser.setAcceptAllFileFilterUsed(false);
            chooser.addChoosableFileFilter(vcfFilter);
            chooser.addChoosableFileFilter(bamFilter);
            chooser.addChoosableFileFilter(linkFilter);
            if (defaultSelectType == "vcf") {
                chooser.setFileFilter(vcfFilter);
            } else if (defaultSelectType == "bam") {
                chooser.setFileFilter(bamFilter);
            } else {
                chooser.setFileFilter(linkFilter);
            }
            chooser.setDialogTitle("Add samples");
            chooser.setPreferredSize(
                    new Dimension((int) screenSize.getWidth() / 3, (int) screenSize.getHeight() / 3));
            int returnVal = chooser.showOpenDialog((Component) this.getParent());

            if (returnVal == JFileChooser.APPROVE_OPTION) {

                File vcffiles[] = chooser.getSelectedFiles();
                if (vcffiles.length == 1 && !vcffiles[0].exists() && pleiades) {

                    if (Main.chooserText.contains("`")) {
                        Main.chooserText.replace("`", "?");
                    }
                    if (Main.chooserText.contains(" ")) {
                        Main.chooserText.replace(" ", "%20");
                    }
                    if (Main.chooserText.contains("pleiades")) {
                        try {
                            URL url = new URL(Main.chooserText);
                            //System.out.println(Main.chooserText);
                            HttpURLConnection httpConn = (HttpURLConnection) url.openConnection();
                            httpConn.connect();

                            int responseCode = httpConn.getResponseCode();

                            if (responseCode == HttpsURLConnection.HTTP_OK) {

                                String loading = drawCanvas.loadingtext;
                                InputStream inputStream = httpConn.getInputStream();
                                BufferedReader reader = new BufferedReader(new InputStreamReader(inputStream));
                                Main.drawCanvas.loadingtext = loading + " 0MB";
                                String line;
                                StringBuffer buffer = new StringBuffer("");
                                while ((line = reader.readLine()) != null) {

                                    buffer.append(line);

                                }
                                inputStream.close();
                                reader.close();
                                String split2;
                                String[] split = buffer.toString().split("dataUnit");
                                String location;
                                ArrayList<File> array = new ArrayList<File>();
                                File[] paths;
                                FileSystemView fsv = FileSystemView.getFileSystemView();
                                paths = File.listRoots();
                                String loc = "/mnt";
                                boolean missingfiles = false;
                                for (File path : paths) {
                                    if (fsv.getSystemDisplayName(path).contains("merit")) {
                                        loc = path.getCanonicalPath();
                                    }
                                }

                                for (int i = 0; i < split.length; i++) {

                                    if (!split[i].contains("lastLocation")) {

                                        continue;
                                    }

                                    split2 = split[i].split("\"lastLocation\":\"")[1];
                                    location = split2.substring(0, split2.indexOf("\"}"));
                                    String filename = "";
                                    String testloc = location.replace("/mnt", loc) + "/wgspipeline/";
                                    File testDir = new File(testloc);
                                    if (testDir.exists() && testDir.isDirectory()) {
                                        if (chooser.getFileFilter()
                                                .equals(chooser.getChoosableFileFilters()[1])) {
                                            File[] addDir = testDir.listFiles(new FilenameFilter() {
                                                public boolean accept(File dir, String name) {
                                                    return name.toLowerCase().endsWith(".bam")
                                                            || name.toLowerCase().endsWith(".cram");
                                                }
                                            });
                                            if (addDir.length > 0) {
                                                filename = addDir[0].getName();
                                            }
                                        } else {
                                            File[] addDir = testDir.listFiles(new FilenameFilter() {
                                                public boolean accept(File dir, String name) {
                                                    return name.toLowerCase().endsWith(".vcf.gz");
                                                }
                                            });
                                            if (addDir.length > 0) {
                                                filename = addDir[0].getName();
                                            }
                                        }
                                    }

                                    location = testloc + "/" + filename;

                                    if (!new File(location).exists()) {

                                        if (!new File(location).exists()) {
                                            missingfiles = true;
                                            ErrorLog.addError("No sample files found in " + testloc);

                                        } else {
                                            array.add(new File(location));
                                        }
                                    } else {

                                        array.add(new File(location));
                                    }
                                }

                                File[] files = new File[array.size()];
                                for (int i = 0; i < files.length; i++) {

                                    files[i] = array.get(i);
                                }
                                FileRead filereader = new FileRead(files);
                                filereader.start = (int) drawCanvas.selectedSplit.start;
                                filereader.end = (int) drawCanvas.selectedSplit.end;
                                if (chooser.getFileFilter().equals(chooser.getChoosableFileFilters()[1])) {
                                    filereader.readBAM = true;
                                } else {
                                    filereader.readVCF = true;
                                }
                                filereader.execute();
                                if (missingfiles) {
                                    JOptionPane.showMessageDialog(Main.drawScroll,
                                            "Missing files. Check Tools->View log", "Note",
                                            JOptionPane.INFORMATION_MESSAGE);
                                }

                            }
                        } catch (Exception ex) {
                            ex.printStackTrace();
                        }
                    }

                    return;
                }

                if (vcffiles.length > 0) {
                    path = vcffiles[0].getParent();
                    writeToConfig("DefaultDir=" + path);
                    FileRead filereader = new FileRead(vcffiles);

                    if (chooser.getFileFilter().equals(chooser.getChoosableFileFilters()[0])) {
                        defaultSelectType = "vcf";
                        filereader.start = (int) drawCanvas.selectedSplit.start;
                        filereader.end = (int) drawCanvas.selectedSplit.end;
                        filereader.readVCF = true;
                        filereader.execute();
                    } else if (chooser.getFileFilter().equals(chooser.getChoosableFileFilters()[1])) {
                        defaultSelectType = "bam";
                        filereader.readBAM = true;
                        filereader.execute();
                    } else if (chooser.getFileFilter().equals(chooser.getChoosableFileFilters()[2])) {

                        defaultSelectType = "link";
                        filereader.readBAM = true;
                        filereader.execute();
                    }
                } else {

                    JOptionPane.showMessageDialog(Main.drawScroll,
                            "The file does not exist. The file link may be broken.\nThe problem may also be the Java run time version in Linux.",
                            "Note", JOptionPane.INFORMATION_MESSAGE);
                }
            }
        } catch (Exception ex) {
            ex.printStackTrace();
        }

    } else if (e.getSource() == addcontrols) {
        if (!checkGenome())
            return;
        if (VariantHandler.frame != null) {
            VariantHandler.frame.setState(Frame.ICONIFIED);
        }
        FileDialog fc = new FileDialog(frame, "Choose control file(s)", FileDialog.LOAD);
        fc.setDirectory(Main.controlDir);
        fc.setFile("*.vcf.gz");
        fc.setFilenameFilter(new FilenameFilter() {
            public boolean accept(File dir, String name) {
                return name.toLowerCase().endsWith(".vcf.gz");
            }
        });
        fc.setMultipleMode(true);
        fc.setVisible(true);
        File[] openfiles = fc.getFiles();

        if (openfiles != null && openfiles.length > 0) {

            controlDir = openfiles[0].getParent();
            writeToConfig("DefaultControlDir=" + controlDir);

            Control.addFiles(openfiles);
        }
        if (1 == 1) {
            return;
        }
        JFileChooser chooser = new JFileChooser(controlDir);
        //        JFileChooser chooser = new JFileChooser(path);            
        chooser.setMultiSelectionEnabled(true);
        chooser.setAcceptAllFileFilterUsed(false);
        Control.MyFilter vcfFilter = new Control.MyFilter();
        chooser.addChoosableFileFilter(vcfFilter);

        chooser.setDialogTitle("Add controls");
        chooser.setPreferredSize(
                new Dimension((int) screenSize.getWidth() / 3, (int) screenSize.getHeight() / 3));
        int returnVal = chooser.showOpenDialog((Component) this.getParent());

        if (returnVal == JFileChooser.APPROVE_OPTION) {

            File vcffiles[] = chooser.getSelectedFiles();
            controlDir = vcffiles[0].getParent();
            writeToConfig("DefaultControlDir=" + controlDir);

            if (chooser.getFileFilter().equals(chooser.getChoosableFileFilters()[0])) {
                Control.addFiles(vcffiles);
            }
        }
    } else if (e.getSource() == addtracks) {
        if (!checkGenome())
            return;
        try {
            if (!checkGenome())
                return;
            if (VariantHandler.frame != null) {
                VariantHandler.frame.setState(Frame.ICONIFIED);
            }

            FileDialog fc = new FileDialog(frame, "Choose track file(s)", FileDialog.LOAD);
            fc.setDirectory(Main.trackDir);
            fc.setFile(
                    "*.bed;*.bedgraph.gz;*.gff.gz;*.gff3.gz;*.bigwig;*.bw;*.bigbed;*.bb;*.tsv.gz;*.tsv.bgz;*.txt");
            fc.setFilenameFilter(new FilenameFilter() {
                public boolean accept(File dir, String name) {
                    return name.toLowerCase().endsWith(".bed") || name.toLowerCase().endsWith(".bed.gz")
                            || name.toLowerCase().endsWith(".bedgraph.gz")
                            || name.toLowerCase().endsWith(".bedgraph.gz")
                            || name.toLowerCase().endsWith(".bedgraph.gz")
                            || name.toLowerCase().endsWith(".gff.gz") || name.toLowerCase().endsWith(".gff3.gz")
                            || name.toLowerCase().endsWith(".bigwig") || name.toLowerCase().endsWith(".bw")
                            || name.toLowerCase().endsWith(".bigbed") || name.toLowerCase().endsWith(".bb")
                            || name.toLowerCase().endsWith(".tsv.gz") || name.toLowerCase().endsWith(".tsv.bgz")
                            || name.toLowerCase().endsWith(".txt");
                }
            });
            fc.setMultipleMode(true);
            fc.setVisible(true);
            File[] openfiles = fc.getFiles();

            if (openfiles != null && openfiles.length > 0) {

                trackDir = openfiles[0].getParent();
                writeToConfig("DefaultTrackDir=" + trackDir);
                FileRead filereader = new FileRead(openfiles);
                filereader.readBED = true;
                filereader.execute();

            } else {
                //Main.showError("File(s) does not exist.", "Error");
            }

        } catch (Exception ex) {
            Main.showError(ex.getMessage(), "Error");
        }
        if (1 == 1) {
            return;
        }
        if (VariantHandler.frame != null) {
            VariantHandler.frame.setState(Frame.ICONIFIED);
        }
        JFileChooser chooser = new JFileChooser(Main.trackDir);
        getText(chooser.getComponents());
        chooser.setMultiSelectionEnabled(true);
        chooser.setAcceptAllFileFilterUsed(false);
        MyFilterBED bedFilter = new MyFilterBED();
        MyFilterTXT txtFilter = new MyFilterTXT();
        chooser.addChoosableFileFilter(bedFilter);
        chooser.addChoosableFileFilter(txtFilter);
        chooser.setDialogTitle("Add tracks");
        chooser.setPreferredSize(
                new Dimension((int) screenSize.getWidth() / 3, (int) screenSize.getHeight() / 3));
        int returnVal = chooser.showOpenDialog((Component) this.getParent());

        try {

            if (returnVal == JFileChooser.APPROVE_OPTION) {

                File bedfiles[] = chooser.getSelectedFiles();
                if (bedfiles[0].exists()) {

                    trackDir = bedfiles[0].getParent();
                    writeToConfig("DefaultTrackDir=" + trackDir);
                    FileRead filereader = new FileRead(bedfiles);
                    filereader.readBED(bedfiles);

                } else {

                    if (Main.chooserText.length() > 5 && Main.chooserText.endsWith(".bed.gz")
                            || Main.chooserText.endsWith(".gff.gz") || Main.chooserText.endsWith(".gff3.gz")
                            || Main.chooserText.endsWith(".bedgraph.gz")) {

                        if (Main.chooserText.startsWith("http://") || Main.chooserText.startsWith("ftp://")) {

                            URL url = new URL(Main.chooserText);
                            SeekableStream stream = SeekableStreamFactory.getInstance().getStreamFor(url);
                            TabixReader tabixReader = null;
                            String index = null;

                            try {
                                tabixReader = new TabixReader(Main.chooserText, Main.chooserText + ".tbi",
                                        stream);
                                index = Main.chooserText + ".tbi";
                            } catch (Exception ex) {
                                try {
                                    tabixReader = new TabixReader(Main.chooserText,
                                            Main.chooserText.substring(0, Main.chooserText.indexOf(".gz"))
                                                    + ".tbi",
                                            stream);
                                    index = Main.chooserText.substring(0, Main.chooserText.indexOf(".gz"))
                                            + ".tbi";
                                } catch (Exception exc) {
                                    exc.printStackTrace();
                                }
                            }
                            if (tabixReader != null && index != null) {

                                FileRead filereader = new FileRead(bedfiles);
                                filereader.readBED(Main.chooserText, index, false);

                                tabixReader.close();
                            }
                        }
                    } else {
                        if (Main.chooserText.contains("://")) {

                            try {
                                //        bbreader = new BBFileReader(Main.chooserText, stream);

                            } catch (Exception ex) {
                                ex.printStackTrace();
                            }

                            //  if(bbreader != null) {

                            FileRead filereader = new FileRead(bedfiles);
                            filereader.readBED(Main.chooserText, "nan", false);

                            //     }
                            //     stream.close();
                        }
                    }
                }
            }

        } catch (Exception ex) {
            ex.printStackTrace();
        }
    } else if (e.getSource() == openProject) {
        if (!checkGenome())
            return;
        if (VariantHandler.frame != null) {
            VariantHandler.frame.setState(Frame.ICONIFIED);
        }
        openProject();
    } else if (e.getSource() == saveProjectAs) {
        if (VariantHandler.frame != null) {
            VariantHandler.frame.setState(Frame.ICONIFIED);
        }
        try {
            File savefile = null;
            FileDialog fs = new FileDialog(frame, "Save project as...", FileDialog.SAVE);
            fs.setDirectory(projectDir);
            fs.setFile("*.ses");
            fs.setFilenameFilter(new FilenameFilter() {
                public boolean accept(File dir, String name) {
                    return name.toLowerCase().endsWith(".ses");
                }
            });
            fs.setVisible(true);

            while (true) {
                String filename = fs.getFile();

                if (filename != null) {
                    savefile = new File(fs.getDirectory() + "/" + filename);
                    projectDir = fs.getDirectory();
                    writeToConfig("DefaultProjectDir=" + projectDir);

                    /* if(!Files.isWritable(Paths.get(savefile.getParent()))) {
                       Main.showError("No permission to write.", "Error");
                       continue;
                     }*/

                    if (!savefile.getAbsolutePath().endsWith(".ses")) {
                        savefile = new File(savefile.getAbsolutePath() + ".ses");
                    }

                    Serializer ser = new Serializer();
                    ser.serialize(savefile);
                    break;
                } else {
                    break;
                }
            }
            if (1 == 1) {
                return;
            }
            JFileChooser chooser = new JFileChooser();
            chooser.setAcceptAllFileFilterUsed(false);
            MyFilterSES sesFilter = new MyFilterSES();
            chooser.addChoosableFileFilter(sesFilter);
            chooser.setDialogTitle("Save project as...");
            int returnVal = chooser.showSaveDialog((Component) this.getParent());

            if (returnVal == JFileChooser.APPROVE_OPTION) {
                File outfile = chooser.getSelectedFile();
                if (!outfile.getAbsolutePath().endsWith(".ses")) {
                    outfile = new File(outfile.getAbsolutePath() + ".ses");
                }

                Serializer ser = new Serializer();
                ser.serialize(outfile);
            }
        } catch (Exception ex) {
            ex.printStackTrace();
        }

    } else if (e.getSource() == saveProject) {
        if (drawCanvas.drawVariables.projectName.equals("Untitled")) {
            saveProjectAs.doClick();
        } else {

            Serializer ser = new Serializer();
            ser.serialize(drawCanvas.drawVariables.projectFile);
        }
    }
    /*      else if(e.getSource() == welcome) {
             WelcomeScreen.main(args);
             WelcomeScreen.frame.setVisible(true);
             WelcomeScreen.frame.setLocation(frame.getLocationOnScreen().x+frame.getWidth()/2 - WelcomeScreen.frame.getWidth()/2, frame.getLocationOnScreen().y+frame.getHeight()/6);
                     
          }*/
}

From source file:no.java.swing.SingleSelectionFileDialog.java

private Result showNativeDialog(Component target, boolean open) {
    Window window = target == null ? null : (Frame) SwingUtilities.getWindowAncestor(target);
    FileDialog dialog;/*from  w  w w  .java2  s .  c om*/
    if (window instanceof Frame) {
        dialog = new FileDialog((Frame) window);
    } else if (window instanceof Dialog) {
        dialog = new FileDialog((Dialog) window);
    } else {
        throw new IllegalStateException("Unknown window type");
    }
    dialog.setDirectory(previousDirectory.getAbsolutePath());
    dialog.setMode(open ? FileDialog.LOAD : FileDialog.SAVE);
    dialog.setVisible(true);
    if (rememberPreviousLocation) {
        previousDirectory = new File(dialog.getDirectory());
    }
    if (dialog.getFile() == null) {
        return Result.CANCEL;
    }
    selected = new File(dialog.getFile());
    return Result.APPROVE;
}

From source file:org.tinymediamanager.ui.TmmUIHelper.java

private static Path openFileDialog(String title, int mode, String filename) throws Exception, Error {
    FileDialog chooser = new FileDialog(MainWindow.getFrame(), title, mode);
    if (lastDir != null) {
        chooser.setDirectory(lastDir.toFile().getAbsolutePath());
    }/*from   w w  w  .  j a va 2  s .c o  m*/
    if (mode == FileDialog.SAVE) {
        chooser.setFile(filename);
    }
    chooser.setVisible(true);

    if (StringUtils.isNotEmpty(chooser.getFile())) {
        lastDir = Paths.get(chooser.getDirectory());
        return Paths.get(chooser.getDirectory(), chooser.getFile());
    } else {
        return null;
    }
}