Java Roi.getMask方法代码示例

import ij.gui.Roi; //导入方法依赖的package包/类
/**
 * Convert ImageJ's Roi to Java 3D Shape representation.
 *
 * @param roi source roi.
 * @return translated to Shape.
 */
public static Shape toShape(final Roi roi) {
    final Shape result;
    if (roi instanceof PointRoi) {
        final ByteProcessor mask = (ByteProcessor) roi.getMask();
        final byte[] maskPixels = (byte[]) mask.getPixels();
        final Rectangle maskBounds = roi.getBounds();
        final int maskWidth = mask.getWidth();
        final int maskHeight = mask.getHeight();
        final Area area = new Area();
        for (int y = 0; y < maskHeight; y++) {
            final int yOffset = y * maskWidth;
            for (int x = 0; x < maskWidth; x++) {
                if (maskPixels[x + yOffset] != 0) {
                    area.add(new Area(new Rectangle(x + maskBounds.x, y + maskBounds.y, 1, 1)));
                }
            }
        }
        result = area;
    } else {
        result = makeShapeFromArray(new ShapeRoi(roi).getShapeAsArray());
    }

    return result;
}
 

import ij.gui.Roi; //导入方法依赖的package包/类
public static ArrayList<VPoint> extractBorderPixels(Roi roi){
		ImageProcessor mask = roi.getMask();		
		ArrayList<VPoint> pixels = new ArrayList<VPoint>();
		Rectangle r = roi.getBounds();
		for (int x = 0; x < r.width; ++x){
			for (int y = 0; y < r.height; ++y){
//				int N = 0;				
				for (int i=0; mask.getPixel(x, y) > 0 && i < n8.length; i += 2) {
					if ( mask.getPixel(x + n8[i].x, y + n8[i].y) == 0) {
//						System.out.println("border = " + x + "," + y);
						pixels.add(new VPoint(x + r.x, y + r.y));
//						roi.getImage().getProcessor().putPixel(x + r.x, y + r.y, 255);	
//						roi.getImage().getProcessor().putPixel(x, y, 255);	
						break;
					} 													
				}				
			}
		}
		return pixels;
	}
 

import ij.gui.Roi; //导入方法依赖的package包/类
protected void registerBacteriaRoi(Bacteria b, Roi roi, int frameNo) {
	boolean warnOnce = false;
	bacteriaRoisBag.put(b.getBactName(),  roi);
	log.debug("Roi for " + b.getBactName() + " registered. Current roi bag size = " + bacteriaRoisBag.size() 
			+ " Location is:" + roi.getBounds().x + ", " + roi.getBounds().y);
	ImageProcessor mask = roi.getMask();
	Rectangle r = roi.getBounds();
	for (int x = 0; x < mask.getWidth(); ++x) {
		for (int y = 0; y < mask.getHeight(); ++y) {
			if (mask.getPixel(x, y) > 0) {
				try {
					if (selectionsMask[x + r.x][y + r.y] != 0 && selectionsMask[x + r.x][y + r.y] != b.getIdBacteria()) {
						log.debug("***************** OVERLAP ERROR (frameNo = " + frameNo + "): " + b.getBactName() + " vs " + selectionsMask[x + r.x][y + r.y]
								+ " pixel = " + (x + r.x) + ", " +  (y + r.y)
							 );
						if (imp!= null) imp.getProcessor().putPixel(x + r.x, y + r.y, MovieProcessor.colToValue(Color.red));
					}
					selectionsMask[x + r.x][y + r.y] = b.getIdBacteria();
				} catch (ArrayIndexOutOfBoundsException e) {
					if (!warnOnce) {
						warnOnce = true;
						String state = CurrentExperiment.getBacteriaStateAt(b, frameNo);
						if (state == null || state.toLowerCase().indexOf("ignore") == -1 ){
							ControlPanel.addStatusMessage("Error registering bacteria " + b.getBactName() + ". Is it leaving the window? You should ignore it.");
						}
					}
				}
			}
		}
	}
}
 

import ij.gui.Roi; //导入方法依赖的package包/类
protected void registerBacteriaRoi(Bacteria b, Roi roi, int frameNo) {
	boolean warnOnce = false;
	bacteriaRoisBag.put(b.getBactName(),  roi);
	
	ImageProcessor mask = roi.getMask();
	Rectangle r = roi.getBounds();
	for (int x = 0; x < mask.getWidth(); ++x) {
		for (int y = 0; y < mask.getHeight(); ++y) {
			if (mask.getPixel(x, y) > 0) {
				try {
					if (selectionsMask[x + r.x][y + r.y] != 0 && selectionsMask[x + r.x][y + r.y] != b.getIdBacteria()) {
						log.debug("***************** OVERLAP ERROR (frameNo = " + frameNo + "): " + b.getBactName() + " vs " + selectionsMask[x + r.x][y + r.y]
								+ " pixel = " + (x + r.x) + ", " +  (y + r.y)
							 );
						if (imp!= null) imp.getProcessor().putPixel(x + r.x, y + r.y, MovieProcessor.colToValue(Color.red));
					}
					selectionsMask[x + r.x][y + r.y] = b.getIdBacteria();
				} catch (ArrayIndexOutOfBoundsException e) {
					if (!warnOnce) {
						warnOnce = true;
						String state = CurrentExperiment.getBacteriaStateAt(b, frameNo);
						if (state == null || state.toLowerCase().indexOf("ignore") == -1 ){
							ControlPanel.addStatusMessage("Error registering bacteria " + b.getBactName() + ". Is it leaving the window? You should ignore it.");
						}
					}
				}
			}
		}
	}
}
 

import ij.gui.Roi; //导入方法依赖的package包/类
/**
 * Creates appropriate data structures from the ROI information
 * passed. If an irregular ROI is found, it will be put into a
 * frame of its bounding box size and put into an {@code Image<T>}.
 *
 * In the end the members ROIs, masks and maskBBs will be
 * filled if ROIs or masks were found. They will be null
 * otherwise.
 */
protected void createMasksAndRois(final Roi[] rois, final int width,
	final int height)
{
	// create empty list
	masks.clear();

	for (final Roi r : rois) {
		final MaskInfo mi = new MaskInfo();
		// add it to the list of masks/ROIs
		masks.add(mi);
		// get the ROIs/masks bounding box
		final Rectangle rect = r.getBounds();
		mi.roi = new BoundingBox(new long[] { rect.x, rect.y }, new long[] {
			rect.width, rect.height });
		final ImageProcessor ipMask = r.getMask();
		// check if we got a regular ROI and return if so
		if (ipMask == null) {
			continue;
		}

		// create a mask processor of the same size as a slice
		final ImageProcessor ipSlice = ipMask.createProcessor(width, height);
		// fill the new slice with black
		ipSlice.setValue(0.0);
		ipSlice.fill();
		// position the mask on the new mask processor
		ipSlice.copyBits(ipMask, (int) mi.roi.offset[0], (int) mi.roi.offset[1],
			Blitter.COPY);
		// create an Image<T> out of it
		final ImagePlus maskImp = new ImagePlus("Mask", ipSlice);
		// and remember it and the masks bounding box
		mi.mask = ImagePlusAdapter.<T> wrap(maskImp);
	}
}