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

Example 16 with DatasetView

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

the class ShowLUT method run.

// -- public interface --
@Override
public void run() {
    DatasetView view = imgDispService.getActiveDatasetView(display);
    List<ColorTable> colorTables = view.getColorTables();
    int currChannel = display.getIntPosition(Axes.CHANNEL);
    ColorTable colorTable = colorTables.get(currChannel);
    Dataset ds = createDataset(colorTable);
    output = displayService.createDisplay(ds);
// TODO
// output.addButton("List", ShowLUTAsTable.class);
}

Example 17 with DatasetView

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

the class CopyToSystem method getARGBPixels.

private ARGBPlane getARGBPixels() {
    final DatasetView view = imageDisplayService.getActiveDatasetView(display);
    if (view == null)
        return null;
    final Overlay overlay = overlayService.getActiveOverlay(display);
    final int imageWidth = (int) display.dimension(0);
    final int imageHeight = (int) display.dimension(1);
    final int[] argbPixels = view.getScreenImage().getData();
    final int x, y, w, h;
    if (overlay == null) {
        // no active overlay
        x = 0;
        y = 0;
        w = imageWidth;
        h = imageHeight;
    } else {
        // an active overlay exists
        int ovrMinX = (int) overlay.realMin(0);
        int ovrMinY = (int) overlay.realMin(1);
        int ovrMaxX = (int) (overlay.realMax(0));
        int ovrMaxY = (int) (overlay.realMax(1));
        // overlay bounds can be outside image bounds
        x = Math.max(0, ovrMinX);
        y = Math.max(0, ovrMinY);
        w = Math.min(imageWidth, ovrMaxX) - x + 1;
        h = Math.min(imageHeight, ovrMaxY) - y + 1;
    }
    final ARGBPlane plane = new ARGBPlane(w, h);
    for (int u = 0; u < w; u++) {
        for (int v = 0; v < h; v++) {
            final int argbLoc = (y + v) * imageWidth + (x + u);
            final int argb = argbPixels[argbLoc];
            plane.setARGB(u, v, argb);
        }
    }
    return plane;
}

Example 18 with DatasetView

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

the class AddSpecifiedNoiseToDataValues method run.

// -- public interface --
@Override
public void run() {
    Dataset dataset = displayService.getActiveDataset(display);
    Overlay overlay = overlayService.getActiveOverlay(display);
    DatasetView view = displayService.getActiveDatasetView(display);
    Position planePos = (allPlanes) ? null : view.getPlanePosition();
    NoiseAdder<T> noiseAdder = new NoiseAdder<T>(dataset, overlay, planePos);
    noiseAdder.setStdDev(stdDev);
    noiseAdder.run();
}

Example 19 with DatasetView

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

the class EquationDataValues method setRegion.

// -- private helpers --
private String setRegion(final ImageDisplay disp, boolean allPlanes) {
    dataset = imgDispService.getActiveDataset(disp);
    final Overlay overlay = overlayService.getActiveOverlay(disp);
    final DatasetView view = imgDispService.getActiveDatasetView(disp);
    // check dimensions of Dataset
    final int xIndex = dataset.dimensionIndex(Axes.X);
    final int yIndex = dataset.dimensionIndex(Axes.Y);
    if ((xIndex < 0) || (yIndex < 0))
        return "display does not have XY planes";
    // calc XY outline boundary
    final long x, y, w, h;
    if (overlay == null) {
        x = 0;
        y = 0;
        w = dataset.dimension(xIndex);
        h = dataset.dimension(yIndex);
    } else {
        x = (long) overlay.realMin(0);
        y = (long) overlay.realMin(1);
        w = Math.round(overlay.realMax(0) - x);
        h = Math.round(overlay.realMax(1) - y);
    }
    // calc origin and span values
    origin = new long[dataset.numDimensions()];
    span = new long[dataset.numDimensions()];
    Position pos = view.getPlanePosition();
    int p = 0;
    for (int i = 0; i < dataset.numDimensions(); i++) {
        if (i == xIndex) {
            origin[xIndex] = x;
            span[xIndex] = w;
        } else if (i == yIndex) {
            origin[yIndex] = y;
            span[yIndex] = h;
        } else if (allPlanes) {
            origin[i] = 0;
            span[i] = dataset.dimension(i);
        } else {
            origin[i] = pos.getLongPosition(p++);
            span[i] = 1;
        }
    }
    condition = null;
    if (overlay != null)
        condition = new UVInsideRoiCondition(overlay.getRegionOfInterest());
    return null;
}

Example 20 with DatasetView

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

the class MathCommand method initialize.

// -- private helpers --
private void initialize() {
    dataset = displayService.getActiveDataset(display);
    overlay = overlayService.getActiveOverlay(display);
    DatasetView view = displayService.getActiveDatasetView(display);
    planePos = view.getPlanePosition();
    InplaceUnaryTransform<?, ?> xform = getPreviewTransform(dataset, overlay);
    PointSet region = determineRegion(dataset, xform.getRegionOrigin(), xform.getRegionSpan());
    iter = region.iterator();
    ArrayImgFactory<DoubleType> factory = new ArrayImgFactory<DoubleType>();
    dataBackup = factory.create(new long[] { region.size() }, new DoubleType());
    backupAccess = dataBackup.randomAccess();
    dataAccess = dataset.getImgPlus().randomAccess();
    // check dimensions of Dataset
    final long w = xform.getRegionSpan()[0];
    final long h = xform.getRegionSpan()[1];
    if (w * h > Integer.MAX_VALUE)
        throw new IllegalArgumentException("preview region too large to copy into memory");
}