Examples with DatasetInputImage sc.fiji.labkit.ui.inputimage.DatasetInputImage used on opensource projects

Example 16 with DatasetInputImage

use of sc.fiji.labkit.ui.inputimage.DatasetInputImage in project labkit-ui by juglab.

the class ImageLabelingModelTest method testChangeLabelingInterval.

@Test
public void testChangeLabelingInterval() {
    Img<UnsignedByteType> image = ArrayImgs.unsignedBytes(8, 8);
    ImageLabelingModel model = new ImageLabelingModel(new DatasetInputImage(image));
    model.labeling().set(initLabeling(4, 4));
    AffineTransform3D labelTransformation = model.labelTransformation();
    assertArrayEquals(expectedTransform(2.0), labelTransformation.getRowPackedCopy(), 0.0);
    // process
    model.labeling().set(initLabeling(2, 2));
    assertArrayEquals(expectedTransform(4.0), labelTransformation.getRowPackedCopy(), 0.0);
}

Example 17 with DatasetInputImage

use of sc.fiji.labkit.ui.inputimage.DatasetInputImage in project labkit-ui by juglab.

the class CziOpener method openInputImage.

private DatasetInputImage openInputImage(String filename, String labelingFilename, int fullres, int series) {
    ImgPlus<ARGBType> image = Parallelization.runMultiThreaded(() -> openImage(filename, fullres, series));
    DatasetInputImage result = new DatasetInputImage(image);
    result.setDefaultLabelingFilename(labelingFilename);
    return result;
}

Example 18 with DatasetInputImage

use of sc.fiji.labkit.ui.inputimage.DatasetInputImage in project labkit-ui by juglab.

the class CziOpener method openResolutionPyramid.

private static DatasetInputImage openResolutionPyramid(String filename, String labelingFilename, List<Integer> selectedSectionIndices) {
    int fullres = selectedSectionIndices.get(0);
    List<ImgPlus<ARGBType>> pyramid = selectedSectionIndices.stream().map(series -> openCachedImage(filename, fullres, series)).collect(Collectors.toList());
    AbstractSource<ARGBType> source = new ResolutionPyramidSource<>(pyramid, new ARGBType(), "source");
    BdvShowable showable = BdvShowable.wrap(source);
    ImgPlus<? extends NumericType<?>> imageForSegmentation = pyramid.get(2);
    imageForSegmentation.setSource(filename);
    DatasetInputImage result = new DatasetInputImage(imageForSegmentation, showable);
    result.setDefaultLabelingFilename(labelingFilename);
    return result;
}

Example 19 with DatasetInputImage

use of sc.fiji.labkit.ui.inputimage.DatasetInputImage in project labkit-ui by juglab.

the class LabkitPlugin method run.

@Override
public void run() {
    DatasetInputImage input = new DatasetInputImage(dataset);
    LabkitFrame.showForImage(context, input);
}

Example 20 with DatasetInputImage

use of sc.fiji.labkit.ui.inputimage.DatasetInputImage in project labkit-ui by juglab.

the class LabeledImage method openInputImage.

private DatasetInputImage openInputImage() {
    try {
        DatasetIOService datasetIOService = context.service(DatasetIOService.class);
        Dataset dataset = datasetIOService.open(imageFile);
        return new DatasetInputImage(dataset);
    } catch (IOException e) {
        throw new RuntimeException(e);
    }
}