Examples with DatasetView net.imagej.display.DatasetView used on opensource projects

Example 1 with DatasetView

use of net.imagej.display.DatasetView in project imagej-omero by imagej.

the class DefaultOMEROService method toOMERO.

@Override
public Object toOMERO(final omero.client client, final Object value) throws omero.ServerError, IOException, ExecutionException, DSOutOfServiceException, DSAccessException, NumberFormatException, URISyntaxException {
    if (value == null)
        return null;
    if (value instanceof Dataset) {
        // upload image to OMERO, returning the resultant image ID
        final Dataset d = (Dataset) value;
        final long imageID = uploadImage(client, d);
        // TODO: upload or update?
        if (d.getProperties().get("rois") != null)
            uploadROIs(createCredentials(client), (TreeNode<?>) d.getProperties().get("rois"), imageID);
        // TODO: Modify tables to implement Named??
        if (d.getProperties().get("tables") != null) {
            @SuppressWarnings("unchecked") final List<Table<?, ?>> tables = (List<Table<?, ?>>) d.getProperties().get("tables");
            final OMEROLocation cred = createCredentials(client);
            for (final Table<?, ?> table : tables) uploadTable(cred, d.getName() + "-table", table, imageID);
        }
        return toOMERO(client, imageID);
    }
    if (convertService.supports(value, Dataset.class))
        return toOMERO(client, convertService.convert(value, Dataset.class));
    if (value instanceof DatasetView) {
        final DatasetView datasetView = (DatasetView) value;
        // TODO: Verify whether any view-specific metadata can be preserved.
        return toOMERO(client, datasetView.getData());
    }
    if (value instanceof ImageDisplay) {
        final ImageDisplay imageDisplay = (ImageDisplay) value;
        // TODO: Support more aspects of image displays; e.g., multiple datasets.
        return toOMERO(client, imageDisplayService.getActiveDataset(imageDisplay));
    }
    if (value instanceof Table)
        return convertOMEROTable((Table<?, ?>) value);
    if (value instanceof TableDisplay)
        return toOMERO(client, ((TableDisplay) value).get(0));
    if (convertService.supports(value, Table.class))
        return toOMERO(client, convertService.convert(value, Table.class));
    if (value instanceof TreeNode) {
        return convertOMEROROI((TreeNode<?>) value, null);
    }
    if (value instanceof MaskPredicate) {
        final Object o = toOMERO(client, new DefaultTreeNode<>(value, null));
        return ((List<?>) o).get(0);
    }
    if (convertService.supports(value, TreeNode.class))
        return toOMERO(client, convertService.convert(value, TreeNode.class));
    if (convertService.supports(value, MaskPredicate.class))
        return toOMERO(client, convertService.convert(value, MaskPredicate.class));
    return toOMERO(value);
}

Example 2 with DatasetView

use of net.imagej.display.DatasetView in project imagej-ui-swing by imagej.

the class SwingImageDisplayPanel method redraw.

@Override
public void redraw() {
    final DatasetView view = imageDisplayService.getActiveDatasetView(display);
    // no active dataset
    if (view == null || view.getProjector() == null)
        return;
    view.getProjector().map();
    displayViewer.getCanvas().update();
}

Example 3 with DatasetView

use of net.imagej.display.DatasetView in project imagej-ui-swing by imagej.

the class SwingImageDisplayPanel method updateColorBar.

private void updateColorBar(final int c) {
    final DatasetView view = imageDisplayService.getActiveDatasetView(display);
    // no active dataset
    if (view == null)
        return;
    List<ColorTable> colorTables = view.getColorTables();
    if (c >= colorTables.size())
        return;
    final ColorTable lut = colorTables.get(c);
    colorBar.setColorTable(lut);
    colorBar.repaint();
}

Example 4 with DatasetView

use of net.imagej.display.DatasetView in project imagej-ui-swing by imagej.

the class JHotDrawImageCanvas method capture.

/**
 * Captures the current view of data displayed in the canvas, including all
 * JHotDraw embellishments.
 */
public Dataset capture() {
    final ImageDisplay display = getDisplay();
    if (display == null)
        return null;
    final DatasetView datasetView = imageDisplayService.getActiveDatasetView(display);
    if (datasetView == null)
        return null;
    final ARGBScreenImage screenImage = datasetView.getScreenImage();
    final Image pixels = screenImage.image();
    final int w = pixels.getWidth(null);
    final int h = pixels.getHeight(null);
    // draw the backdrop image info
    final BufferedImage outputImage = new BufferedImage(w, h, BufferedImage.TYPE_INT_ARGB);
    final Graphics2D outputGraphics = outputImage.createGraphics();
    outputGraphics.drawImage(pixels, 0, 0, null);
    // draw the overlay info
    for (final FigureView view : figureViews) {
        view.getFigure().draw(outputGraphics);
    }
    // create a dataset that has view data with overlay info on top
    final Dataset dataset = datasetService.create(new long[] { w, h, 3 }, "Captured view", new AxisType[] { Axes.X, Axes.Y, Axes.CHANNEL }, 8, false, false);
    dataset.setRGBMerged(true);
    final RandomAccess<? extends RealType<?>> accessor = dataset.randomAccess();
    for (int x = 0; x < w; x++) {
        accessor.setPosition(x, 0);
        for (int y = 0; y < h; y++) {
            accessor.setPosition(y, 1);
            final int rgb = outputImage.getRGB(x, y);
            final int r = (rgb >> 16) & 0xff;
            final int g = (rgb >> 8) & 0xff;
            final int b = (rgb >> 0) & 0xff;
            accessor.setPosition(0, 2);
            accessor.get().setReal(r);
            accessor.setPosition(1, 2);
            accessor.get().setReal(g);
            accessor.setPosition(2, 2);
            accessor.get().setReal(b);
        }
    }
    return dataset;
}

Example 5 with DatasetView

use of net.imagej.display.DatasetView in project imagej-plugins-commands by imagej.

the class ShowInfo method displayRangesString.

private String displayRangesString() {
    int chAxis = disp.dimensionIndex(Axes.CHANNEL);
    if (chAxis < 0)
        return null;
    long numChan = disp.dimension(chAxis);
    final StringBuilder builder = new StringBuilder();
    for (int c = 0; c < numChan; c++) {
        final DatasetView datasetView = imageDisplayService.getActiveDatasetView(disp);
        final double min = datasetView.getChannelMin(c);
        final double max = datasetView.getChannelMax(c);
        builder.append("Display range channel " + c + ": " + min + "-" + max + "\n");
    }
    return builder.toString();
}