Examples with NonBlockingGenericDialog ij.gui.NonBlockingGenericDialog used on opensource projects

Example 1 with NonBlockingGenericDialog

use of ij.gui.NonBlockingGenericDialog in project GDSC-SMLM by aherbert.

the class SpotFinderPreview method showDialog.

/*
	 * (non-Javadoc)
	 * 
	 * @see ij.plugin.filter.ExtendedPlugInFilter#showDialog(ij.ImagePlus, java.lang.String,
	 * ij.plugin.filter.PlugInFilterRunner)
	 */
public int showDialog(ImagePlus imp, String command, PlugInFilterRunner pfr) {
    this.o = imp.getOverlay();
    this.imp = imp;
    String filename = SettingsManager.getSettingsFilename();
    GlobalSettings settings = SettingsManager.loadSettings(filename);
    config = settings.getFitEngineConfiguration();
    fitConfig = config.getFitConfiguration();
    NonBlockingGenericDialog gd = new NonBlockingGenericDialog(TITLE);
    gd.addHelp(About.HELP_URL);
    gd.addMessage("Preview candidate maxima");
    String[] templates = ConfigurationTemplate.getTemplateNames(true);
    gd.addChoice("Template", templates, templates[0]);
    gd.addStringField("Config_file", filename, 40);
    gd.addNumericField("Initial_StdDev0", fitConfig.getInitialPeakStdDev0(), 3);
    String[] filterTypes = SettingsManager.getNames((Object[]) DataFilterType.values());
    gd.addChoice("Spot_filter_type", filterTypes, filterTypes[config.getDataFilterType().ordinal()]);
    String[] filterNames = SettingsManager.getNames((Object[]) DataFilter.values());
    gd.addChoice("Spot_filter", filterNames, filterNames[config.getDataFilter(0).ordinal()]);
    gd.addSlider("Smoothing", 0, 2.5, config.getSmooth(0));
    gd.addSlider("Search_width", 0.5, 2.5, config.getSearch());
    gd.addSlider("Border", 0.5, 2.5, config.getBorder());
    // Find if this image was created with ground truth data
    if (imp.getID() == CreateData.getImageId()) {
        MemoryPeakResults results = CreateData.getResults();
        if (results != null) {
            gd.addSlider("Match_distance", 0, 2.5, distance);
            gd.addCheckbox("Show TP", showTP);
            gd.addCheckbox("Show FP", showFP);
            gd.addMessage("");
            label = (Label) gd.getMessage();
            // Integer coords
            actualCoordinates = ResultsMatchCalculator.getCoordinates(results.getResults(), true);
        }
    }
    if (!(IJ.isMacro() || java.awt.GraphicsEnvironment.isHeadless())) {
        // Listen for changes to an image
        ImagePlus.addImageListener(this);
    }
    gd.addPreviewCheckbox(pfr);
    gd.addDialogListener(this);
    gd.hideCancelButton();
    gd.setOKLabel("Close");
    gd.showDialog();
    if (!(IJ.isMacro() || java.awt.GraphicsEnvironment.isHeadless()))
        ImagePlus.removeImageListener(this);
    if (!gd.wasCanceled()) {
        filename = gd.getNextString();
        if (SettingsManager.saveSettings(settings, filename, true))
            SettingsManager.saveSettingsFilename(filename);
        else
            IJ.error(TITLE, "Failed to save settings to file " + filename);
    }
    // Reset
    imp.setOverlay(o);
    return DONE;
}

Example 2 with NonBlockingGenericDialog

use of ij.gui.NonBlockingGenericDialog in project GDSC-SMLM by aherbert.

the class ConfigurationTemplate method showTemplateImages.

private void showTemplateImages() {
    TITLE = "Template Example Images";
    String[] names = getTemplateNamesWithImage();
    if (names.length == 0) {
        IJ.error(TITLE, "No templates with example images");
        return;
    }
    // Follow when the image slice is changed
    ImagePlus.addImageListener(this);
    NonBlockingGenericDialog gd = new NonBlockingGenericDialog(TITLE);
    gd.addMessage("View the example source image");
    gd.addChoice("Template", names, template);
    gd.addCheckbox("Close_on_exit", close);
    gd.hideCancelButton();
    gd.addDialogListener(this);
    // Show the first template
    template = ((Choice) (gd.getChoices().get(0))).getSelectedItem();
    showTemplateImage(template);
    gd.showDialog();
    template = gd.getNextChoice();
    close = gd.getNextBoolean();
    ImagePlus.removeImageListener(this);
    if (close) {
        if (imp != null)
            imp.close();
        closeResults();
        closeInfo();
    }
}

Example 3 with NonBlockingGenericDialog

use of ij.gui.NonBlockingGenericDialog in project GDSC-SMLM by aherbert.

the class OverlayResults method run.

@Override
public void run(String arg) {
    SmlmUsageTracker.recordPlugin(this.getClass(), arg);
    if (MemoryPeakResults.isMemoryEmpty()) {
        IJ.error(TITLE, "There are no fitting results in memory");
        return;
    }
    names = new String[MemoryPeakResults.getResultNames().size() + 1];
    ids = new int[names.length];
    int count = 0;
    names[count++] = "(None)";
    for (final MemoryPeakResults results : MemoryPeakResults.getAllResults()) {
        if (results.getSource() != null && results.getSource().getOriginal() instanceof IJImageSource) {
            final IJImageSource source = (IJImageSource) (results.getSource().getOriginal());
            final ImagePlus imp = WindowManager.getImage(source.getName());
            if (imp != null) {
                ids[count] = imp.getID();
                names[count++] = results.getName();
            }
        }
    }
    if (count == 1) {
        IJ.error(TITLE, "There are no result images available");
        return;
    }
    names = Arrays.copyOf(names, count);
    Thread thread = null;
    Worker worker = null;
    final NonBlockingGenericDialog gd = new NonBlockingGenericDialog(TITLE);
    settings = Settings.load();
    settings.save();
    gd.addMessage("Overlay results on current image frame");
    gd.addChoice("Results", names, (settings.name == null) ? "" : settings.name);
    gd.addCheckbox("Show_table", settings.showTable);
    gd.addMessage("");
    gd.addHelp(HelpUrls.getUrl("overlay-results"));
    gd.hideCancelButton();
    gd.setOKLabel("Close");
    if (!(IJ.isMacro() || java.awt.GraphicsEnvironment.isHeadless())) {
        worker = new Worker();
        choice = (Choice) gd.getChoices().get(0);
        choice.addItemListener(worker);
        checkbox = (Checkbox) gd.getCheckboxes().get(0);
        checkbox.addItemListener(worker);
        label = (Label) gd.getMessage();
        // Initialise
        worker.refresh();
        // Listen for changes to an image
        ImagePlus.addImageListener(worker);
        thread = new Thread(worker);
        thread.setDaemon(true);
        thread.start();
    }
    gd.showDialog();
    if (worker != null) {
        ImagePlus.removeImageListener(worker);
    }
    if (!gd.wasCanceled()) {
        settings.name = gd.getNextChoice();
        settings.showTable = gd.getNextBoolean();
    }
    if (thread != null && worker != null) {
        worker.running = false;
        inbox.close(true);
        try {
            thread.join(0);
        } catch (final InterruptedException ex) {
            Logger.getLogger(getClass().getName()).log(Level.WARNING, "Unexpected interruption", ex);
            Thread.currentThread().interrupt();
        }
    }
}

Example 4 with NonBlockingGenericDialog

use of ij.gui.NonBlockingGenericDialog in project GDSC-SMLM by aherbert.

the class ConfigurationTemplate method showTemplateImages.

/**
 * Show template images.
 *
 * @param settings the settings
 */
private void showTemplateImages(ConfigurationTemplateSettings.Builder settings) {
    title = "Template Example Images";
    final String[] names = getTemplateNamesWithImage();
    if (names.length == 0) {
        IJ.error(title, "No templates with example images");
        return;
    }
    // Follow when the image slice is changed
    ImageListener listener;
    if (imp != null) {
        listener = new ImageAdapter() {

            @Override
            public void imageUpdated(ImagePlus imp) {
                if (imp == ConfigurationTemplate.this.imp) {
                    updateResults(imp.getCurrentSlice());
                }
            }
        };
        ImagePlus.addImageListener(listener);
    } else {
        listener = null;
    }
    final NonBlockingGenericDialog gd = new NonBlockingGenericDialog(title);
    gd.addMessage("View the example source image");
    gd.addChoice("Template", names, settings.getTemplate());
    gd.addCheckbox("Close_on_exit", settings.getClose());
    gd.hideCancelButton();
    templateImage = true;
    gd.addDialogListener(this::dialogItemChanged);
    // Show the first template
    final String template = ((Choice) (gd.getChoices().get(0))).getSelectedItem();
    showTemplateImage(template);
    gd.addHelp(HelpUrls.getUrl("template-manager-show-images"));
    gd.showDialog();
    // There is no cancel so read the settings.
    settings.setTemplate(gd.getNextChoice());
    settings.setClose(gd.getNextBoolean());
    // This is null safe so always do this
    ImagePlus.removeImageListener(listener);
    if (settings.getClose()) {
        if (imp != null) {
            imp.close();
        }
        closeResults();
        closeInfo();
    }
}

Example 5 with NonBlockingGenericDialog

use of ij.gui.NonBlockingGenericDialog in project GDSC-SMLM by aherbert.

the class ConfigurationTemplate method showTemplate.

/**
 * Show template.
 *
 * @param settings the settings
 */
private void showTemplate(ConfigurationTemplateSettings.Builder settings) {
    if (templates.isEmpty()) {
        IJ.error(title, "No templates are currently loaded");
        return;
    }
    final String[] names = getTemplateNames();
    final NonBlockingGenericDialog gd = new NonBlockingGenericDialog(title);
    gd.addMessage("View the template");
    gd.addChoice("Template", names, settings.getTemplate());
    gd.addCheckbox("Close_on_exit", settings.getClose());
    gd.hideCancelButton();
    gd.addDialogListener(this::dialogItemChanged);
    // Show the first template
    final String template = ((Choice) (gd.getChoices().get(0))).getSelectedItem();
    showTemplate(template);
    gd.addHelp(HelpUrls.getUrl("template-manager-show-template"));
    gd.showDialog();
    // There is no cancel so read the settings.
    settings.setTemplate(gd.getNextChoice());
    settings.setClose(gd.getNextBoolean());
    if (settings.getClose()) {
        closeInfo();
    }
}