protected void hideRois() {
if (currentImage == null) return;
currentImage.killRoi();
if (currentImage.isVisible()) {
currentImage.updateAndDraw();
ImageUtils.removeScrollListener(currentImage, this, this);
}
currentImage = null;
}
protected void updateRoi() {
// System.out.println("image:"+currentImage.getTitle()+ " slice:"+currentImage.getSlice());
Roi r = currentROIs.get(currentImage.getSlice());
if (r != null) {
currentImage.setRoi(r);
} else {
currentImage.killRoi();
}
currentImage.updateAndDraw();
}
protected void registerActiveImage() {
ImagePlus activeImage = WindowManager.getCurrentImage();
if (activeImage != null
&& activeImage.getProcessor() != null) { // && activeImage.getImageStackSize() > 1
if (currentImage != null && currentImage.getWindow() != null && currentImage != activeImage) {
// System.out.println("remove listener:"+currentImage.getTitle());
ImageUtils.removeScrollListener(currentImage, this, this);
currentImage.killRoi();
currentImage.updateAndDraw();
currentImage = null;
}
if (currentImage != activeImage) {
// System.out.println("add listener:"+activeImage.getTitle());
ImageUtils.addScrollListener(activeImage, this, this);
this.currentImage = activeImage;
}
}
}
public void mergeSelectedObjects() {
this.populatingObjects = true;
HashMap<Integer, ArrayList<Object3DGui>> allObjects = getSplitSelection();
for (int channelIdx : allObjects.keySet()) {
ArrayList<Object3DGui> objects = allObjects.get(channelIdx);
if (objects != null && objects.size() >= 2) {
Collections.sort(objects);
Object3DGui o1 = objects.get(0);
for (int i = objects.size() - 1; i > 0; i--) {
Object3DGui o2 = objects.get(i);
o1.merge(o2);
listModel.removeElement(o2);
// IJ.log("merge:"+o1.getName()+ "::"+objects.get(i).getName()+ " channel:"+channelIdx);
}
o1.getChannel().createObjects();
if (autoSave) o1.getChannel().saveOutput();
ImagePlus img = o1.getChannel().getSegmented().getImagePlus();
if (img.isVisible()) {
img.updateAndDraw();
}
}
}
this.populatingObjects = false;
}
public void deleteSelectedObjects() {
populatingObjects = true;
try {
boolean[] modif = new boolean[currentChannels.length];
for (Object o : this.list.getSelectedValues()) {
listModel.removeElement(o);
modif[getChannelRank(((Object3DGui) o).getChannel())] = true;
((Object3DGui) o).delete(true);
}
for (int i = 0; i < currentChannels.length; i++) {
if (modif[i]) {
ImagePlus img = currentChannels[i].getSegmented().getImagePlus();
if (img.isVisible()) {
img.updateAndDraw();
}
currentChannels[i].createObjects();
if (autoSave) currentChannels[i].saveOutput();
}
}
} catch (Exception e) {
exceptionPrinter.print(e, "", Core.GUIMode);
}
populatingObjects = false;
}
public void showRois3D() {
registerActiveImage();
if (currentImage == null) return;
// verifier que l'image active a les memes dimentions
Object[] os = this.list.getSelectedValues();
if (os.length == 1) {
mcib3d.geom.Object3D o = ((Object3DGui) os[0]).getObject3D();
currentImage.setSlice((o.getZmax() + o.getZmin()) / 2 + 1);
}
int nSlices = currentImage.getNSlices();
currentROIs = new HashMap<Integer, Roi>(nSlices);
// stores the roi mask to save memory..
if (roiMask == null || !roiMask.sameDimentions(currentImage)) {
roiMask = new ImageByte("mask", currentImage.getWidth(), currentImage.getHeight(), nSlices);
} else {
roiMask.erase();
}
ImageStack maskStack = roiMask.getImageStack();
Object3DGui obj;
for (Object o : os) {
obj = (Object3DGui) o;
obj.getObject3D().draw(maskStack, 255);
}
// roiMask.show();
for (int i = 1; i <= nSlices; i++) {
ImagePlus im = new ImagePlus("mask", maskStack.getProcessor(i));
im.getProcessor().setThreshold(1, 255, ImageProcessor.NO_LUT_UPDATE);
ThresholdToSelection tts = new ThresholdToSelection();
tts.setup("", im);
tts.run(im.getProcessor());
Roi r = im.getRoi();
if (r != null) currentROIs.put(i, r);
}
updateRoi();
}