Java Code Examples for ij.gui.GenericDialog#getNextString()

@Override
public void run(String arg0) 
{
	ImagePlus imagePlus = IJ.getImage();
	
	GenericDialog gd = new GenericDialog("Remove/Replace Label(s)");
	gd.addStringField("Label(s)", "1", 12);
	gd.addMessage("Separate label values by \",\"");
	gd.addNumericField("Final Value", 0, 0);
	gd.addMessage("Replacing by value 0\n will remove labels");
	gd.showDialog();
	
	if (gd.wasCanceled())
		return;
	
	String labelListString = gd.getNextString();
	double finalValue = gd.getNextNumber();

	float[] labelArray = parseLabels(labelListString);
	
	// replace values in original image
	LabelImages.replaceLabels(imagePlus, labelArray, (float) finalValue);
	imagePlus.updateAndDraw();
}
 

public void run(String args) {
    ImagePlus imagePlus = IJ.getImage();
    
    // create the dialog, with operator options
    GenericDialog gd = new GenericDialog("Select Label(s)");
    gd.addMessage("Add labels seperated by comma.\nEx: [1, 2, 6, 9]");
    gd.addStringField("Label(s)", "1");
    gd.showDialog();
    
    // If cancel was clicked, do nothing
    if (gd.wasCanceled())
        return;
    
    // extract label index, and number of pixel border to add
    String labelString = (String) gd.getNextString();
  
    int[] labels = IJUtils.parseLabelList(labelString);
    ImagePlus selectedPlus = LabelImages.keepLabels(imagePlus, labels);
    		
    // copy settings
    selectedPlus.copyScale(imagePlus);
    selectedPlus.setDisplayRange(imagePlus.getDisplayRangeMin(), imagePlus.getDisplayRangeMax());
    selectedPlus.setLut( imagePlus.getProcessor().getLut() );

    // display and adapt visible slice
    selectedPlus.show();
    if (imagePlus.getStackSize() > 1)
    {	
    	selectedPlus.setSlice(imagePlus.getCurrentSlice());
    }
}
 

public void rename(final ProjectThing thing) {
	final Object ob = thing.getObject();
	final String old_title;
	if (null == ob) old_title = thing.getType();
	else if (ob instanceof DBObject) old_title = ((DBObject)ob).getTitle();
	else old_title = ob.toString();
	GenericDialog gd = ControlWindow.makeGenericDialog("New name");
	gd.addMessage("Old name: " + old_title);
	gd.addStringField("New name: ", old_title, 40);
	gd.showDialog();
	if (gd.wasCanceled()) return;
	String title = gd.getNextString();
	if (null == title) {
		Utils.log("WARNING: avoided setting the title to null for " + thing);
		return;
	}
	title = title.replace('"', '\'').trim(); // avoid XML problems - could also replace by double '', then replace again by " when reading.
	project.getRootLayerSet().addUndoStep(new RenameThingStep(thing));
	if (title.length() == 0) {
		// Set the title to the template type
		thing.setTitle(thing.getTemplate().getType());
		return;
	}
	thing.setTitle(title);
	this.updateUILater();
	project.getRootLayerSet().addUndoStep(new RenameThingStep(thing));
}
 

boolean setParametersFromDialog() {

            final GenericDialog dialog = new GenericDialog("Import Parameters");

            final int defaultTextColumns = 80;
            dialog.addStringField("Render Web Services Base URL", baseDataUrl, defaultTextColumns);
            dialog.addStringField("Render Stack Owner", renderOwner, defaultTextColumns);
            dialog.addStringField("Render Stack Project", renderProject, defaultTextColumns);
            dialog.addStringField("Render Stack Name", renderStack, defaultTextColumns);
            dialog.addStringField("Channel (empty for default)", "", defaultTextColumns);
            dialog.addNumericField("Min Z", minZ, 1);
            dialog.addNumericField("Max Z", maxZ, 1);
            dialog.addNumericField("Image Plus Type (use '-1' to slowly derive dynamically)", imagePlusType, 0);
            dialog.addMessage("  note: image plus type values are: 0:GRAY8, 1:GRAY16, 2:GRAY32, 3:COLOR_256, 4:COLOR_RGB");
            dialog.addCheckbox("Load Masks", loadMasks);
            dialog.addCheckbox("Split Sections", splitSections);
            dialog.addCheckbox("Replace Last Transform With Stage", replaceLastWithStage);
            dialog.addNumericField("Number of threads for mipmaps", numberOfMipmapThreads, 0);

            dialog.showDialog();
            dialog.repaint(); // seems to help with missing dialog elements, but shouldn't be necessary

            final boolean wasCancelled = dialog.wasCanceled();

            if (! wasCancelled) {
                baseDataUrl = dialog.getNextString();
                renderOwner = dialog.getNextString();
                renderProject = dialog.getNextString();
                renderStack =  dialog.getNextString();
                String channelString = dialog.getNextString();
                if (channelString != null && channelString.length() > 0) {
                    channels.add(channelString);
                }
                minZ = dialog.getNextNumber();
                maxZ = dialog.getNextNumber();
                imagePlusType = new Double(dialog.getNextNumber()).intValue();
                loadMasks = dialog.getNextBoolean();
                splitSections = dialog.getNextBoolean();
                replaceLastWithStage = dialog.getNextBoolean();
                numberOfMipmapThreads = (int) dialog.getNextNumber();
            }

            return wasCancelled;
        }
 

public BoundingBox defineBoundingBox(
		final SpimData2 data,
		final List< ViewId > viewIds,
		final String clusterExtension,
		final String xmlFileName,
		final boolean saveXML )
{
	final String[] boundingBoxDescriptions = new String[ staticBoundingBoxAlgorithms.size() ];

	for ( int i = 0; i < staticBoundingBoxAlgorithms.size(); ++i )
		boundingBoxDescriptions[ i ] = staticBoundingBoxAlgorithms.get( i ).getDescription();

	if ( defaultBoundingBoxAlgorithm >= boundingBoxDescriptions.length )
		defaultBoundingBoxAlgorithm = 0;

	final GenericDialog gd = new GenericDialog( "Image Fusion" );

	gd.addChoice( "Bounding_Box", boundingBoxDescriptions, boundingBoxDescriptions[ defaultBoundingBoxAlgorithm ] );
	gd.addStringField( "Bounding_Box_Name", defaultName, 30 );

	// assemble the last registration names of all viewsetups involved
	final HashMap< String, Integer > names = GUIHelper.assembleRegistrationNames( data, viewIds );
	gd.addMessage( "" );
	GUIHelper.displayRegistrationNames( gd, names );
	gd.addMessage( "" );

	GUIHelper.addWebsite( gd );

	if ( names.keySet().size() > 5 )
		GUIHelper.addScrollBars( gd );
	
	gd.showDialog();

	if ( gd.wasCanceled() )
		return null;

	final int boundingBoxAlgorithm = defaultBoundingBoxAlgorithm = gd.getNextChoiceIndex();
	final String boundingBoxName = gd.getNextString();

	for ( final BoundingBox bb : data.getBoundingBoxes().getBoundingBoxes() )
	{
		if ( bb.getTitle().equals( boundingBoxName ) )
		{
			IOFunctions.println( "A bounding box with the name '" + boundingBoxName + "' already exists." );
			defaultName = boundingBoxName + "1";
			return null;
		}
	}

	final BoundingBoxGUI boundingBox = staticBoundingBoxAlgorithms.get( boundingBoxAlgorithm ).newInstance( data, viewIds );

	if ( !boundingBox.queryParameters( null, null ) )
		return null;

	boundingBox.setTitle( boundingBoxName );
	defaultName = boundingBoxName + "1";

	data.getBoundingBoxes().addBoundingBox( boundingBox );

	if ( saveXML )
		SpimData2.saveXML( data, xmlFileName, clusterExtension );

	return boundingBox;
}
 

@Override
public boolean dialogItemChanged(final GenericDialog gd, final AWTEvent e) {
	final Object source = (e == null) ? null : e.getSource();
	final Vector<?> choices = gd.getChoices();
	final Vector<?> fields = gd.getStringFields();
	final Button[] buttons = gd.getButtons();
	final Choice fChoice = (Choice) choices.elementAt(0);
	final TextField fField = (TextField) fields.elementAt(0);
	final Button okButton = buttons[0];

	sFilename = gd.getNextString();
	sType = gd.getNextChoiceIndex();
	infoMsg = (MultiLineLabel) gd.getMessage();

	// Populate text area
	if (source == fChoice) {
		String header = "";
		switch (sType) {
		case BSH:
			header = bshHeader();
			break;
		case CLJ:
			header = cljHeader();
			break;
		case GRV:
			header = grvHeader();
			break;
		case IJM:
			header = ijmHeader();
			break;
		case JS:
			header = jsHeader();
			break;
		case PY:
			header = pyHeader();
			break;
		case RB:
			header = rbHeader();
			break;
		}
		if (header != "")
			appendToTextArea(header);

		// Ensure adequate filename extension
		if (!sFilename.endsWith(S_EXTS[sType])) {
			final int index = sFilename.lastIndexOf(".");
			if (index > -1)
				sFilename = sFilename.substring(0, index);
			sFilename += S_EXTS[sType];
			fField.setText(sFilename);
		}

	}

	// Adjust labels and fields
	final File f = new File(Utils.getMyRoutinesDir() + sFilename);
	final boolean invalidName = invalidFilename(sFilename);
	okButton.setLabel(f.exists() ? "Replace and Open" : " Create and Open ");
	fField.setForeground((f.exists()||invalidName) ? Color.RED : Color.BLACK);

	// Adjust messages
	final StringBuilder sb = new StringBuilder();
	if (invalidName) {
		sb.append("\nInvalid Filename");
	} else if (f.exists()) {
		sb.append("File already exists in BAR/My_Routines!");
	} else if (sFilename.indexOf("_") == -1) {
		sb.append("\nFile does not contain an underscore");
		sb.append("\nand will not be listed in the BAR Menu.");
	} else {
		sb.append("\nFile will be listed in the BAR Menu.");
	}
	infoMsg.setText(sb.toString());
	infoMsg.setForeground(Color.DARK_GRAY);

	return !invalidName;
}
 

/**
 * Setup as a three step dialog.
 */
@Override
public boolean setup( final String title )
{
	source_dir = "";
	while ( source_dir == "" )
	{
		final DirectoryChooser dc = new DirectoryChooser( "Calibration Images" );
		source_dir = dc.getDirectory();
		if ( null == source_dir ) return false;

		source_dir = source_dir.replace( '\\', '/' );
		if ( !source_dir.endsWith( "/" ) ) source_dir += "/";
	}

	final String exts = ".tif.jpg.png.gif.tiff.jpeg.bmp.pgm";
	names = new File( source_dir ).list(
			new FilenameFilter()
			{
				@Override
                      public boolean accept( final File dir, final String name )
				{
					final int idot = name.lastIndexOf( '.' );
					if ( -1 == idot ) return false;
					return exts.contains( name.substring( idot ).toLowerCase() );
				}
			} );
	Arrays.sort( names );

	final GenericDialog gd = new GenericDialog( title );

	gd.addNumericField( "number_of_images :", 9, 0 );
	gd.addChoice( "first_image :", names, names[ 0 ] );
	gd.addNumericField( "power_of_polynomial_kernel :", dimension, 0 );
	gd.addNumericField( "lambda :", lambda, 6 );
	gd.addCheckbox( "apply_correction_to_images", applyCorrection );
	gd.addCheckbox( "visualize results", visualizeResults );
	final String[] options = new String[]{ "save", "load" };
	gd.addChoice( "What to do? ", options, options[ saveOrLoad ] );
	gd.addStringField( "file_name: ", saveFileName );
	gd.showDialog();

	if (gd.wasCanceled()) return false;

	numberOfImages = ( int )gd.getNextNumber();
	firstImageIndex = gd.getNextChoiceIndex();
	dimension = ( int )gd.getNextNumber();
	lambda = gd.getNextNumber();
	applyCorrection = gd.getNextBoolean();
	visualizeResults = gd.getNextBoolean();
	saveOrLoad = gd.getNextChoiceIndex();
	saveFileName = gd.getNextString();

	if ( saveOrLoad == 0 || visualizeResults )
	{
		final GenericDialog gds = new GenericDialog( title );
		SIFT.addFields( gds, sift );

		gds.addNumericField( "closest/next_closest_ratio :", rod, 2 );

		gds.addMessage( "Geometric Consensus Filter:" );
		gds.addNumericField( "maximal_alignment_error :", maxEpsilon, 2, 6, "px" );
		gds.addNumericField( "inlier_ratio :", minInlierRatio, 2 );
		gds.addChoice( "expected_transformation :", modelStrings, modelStrings[ expectedModelIndex ] );

		gds.showDialog();
		if ( gds.wasCanceled() ) return false;

		SIFT.readFields( gds, sift );

		rod = ( float )gds.getNextNumber();

		maxEpsilon = ( float )gds.getNextNumber();
		minInlierRatio = ( float )gds.getNextNumber();
		expectedModelIndex = gds.getNextChoiceIndex();

		return !( gd.invalidNumber() || gds.invalidNumber() );
	}

	return !gd.invalidNumber();
}