3df28dc6f0bb0704febd6bd1467bb728f4fbe771,cellprofiler/modules/measuretexture.py,MeasureTexture,run_one,#MeasureTexture#Any#Any#Any#Any#,490

Before Change

        features = numpy.empty((n_directions, 13, len(unique_labels)))

        for index, label in enumerate(unique_labels):
            label_data = numpy.zeros_like(pixel_data)
            label_data[labels == label] = pixel_data[labels == label]

            try:
                features[:, :, index] = mahotas.features.haralick(
                    label_data, distance=scale, ignore_zeros=True
                )
            except ValueError:
                features[:, :, index] = numpy.nan

        for direction, direction_features in enumerate(features):

After Change

        // mahotas.features.haralick bricks itself when provided a dtype larger than uint8 (version 1.4.3)
        pixel_data = skimage.exposure.rescale_intensity(pixel_data,out_range=(0,gray_levels-1)).astype(numpy.uint8)
        props = skimage.measure.regionprops(labels, pixel_data)
        per_label = [self.run_mahotas(prop, scale, n_directions) for prop in props]
        features = dask.compute(per_label, scheduler="threads")
        features = numpy.array(features)[0].transpose(1,2,0)

        for direction, direction_features in enumerate(features):
            for feature_name, feature in zip(F_HARALICK, direction_features):

Instances