void addToRoiManager(ImagePlus imp) {
if (IJ.macroRunning() && Interpreter.isBatchModeRoiManager())
IJ.error("run(\"Add to Manager\") may not work in batch mode macros");
Frame frame = WindowManager.getFrame("ROI Manager");
if (frame == null) IJ.run("ROI Manager...");
if (imp == null) return;
Roi roi = imp.getRoi();
if (roi == null) return;
frame = WindowManager.getFrame("ROI Manager");
if (frame == null || !(frame instanceof RoiManager)) IJ.error("ROI Manager not found");
RoiManager rm = (RoiManager) frame;
boolean altDown = IJ.altKeyDown();
IJ.setKeyUp(IJ.ALL_KEYS);
if (altDown && !IJ.macroRunning()) IJ.setKeyDown(KeyEvent.VK_SHIFT);
if (roi.getState() == Roi.CONSTRUCTING) { // wait (up to 2 sec.) until ROI finished
long start = System.currentTimeMillis();
while (true) {
IJ.wait(10);
if (roi.getState() != Roi.CONSTRUCTING) break;
if ((System.currentTimeMillis() - start) > 2000) {
IJ.beep();
IJ.error("Add to Manager", "Selection is not complete");
return;
}
}
}
rm.runCommand("add");
IJ.setKeyUp(IJ.ALL_KEYS);
}
void createMask(ImagePlus imp) {
Roi roi = imp.getRoi();
boolean useInvertingLut = Prefs.useInvertingLut;
Prefs.useInvertingLut = false;
if (roi == null || !(roi.isArea() || roi.getType() == Roi.POINT)) {
createMaskFromThreshold(imp);
Prefs.useInvertingLut = useInvertingLut;
return;
}
ImagePlus maskImp = null;
Frame frame = WindowManager.getFrame("Mask");
if (frame != null && (frame instanceof ImageWindow))
maskImp = ((ImageWindow) frame).getImagePlus();
if (maskImp == null) {
ImageProcessor ip = new ByteProcessor(imp.getWidth(), imp.getHeight());
if (!Prefs.blackBackground) ip.invertLut();
maskImp = new ImagePlus("Mask", ip);
maskImp.show();
}
ImageProcessor ip = maskImp.getProcessor();
ip.setRoi(roi);
ip.setValue(255);
ip.fill(ip.getMask());
maskImp.updateAndDraw();
Prefs.useInvertingLut = useInvertingLut;
}
void saveWindowLocations() {
Frame frame = WindowManager.getFrame("B&C");
if (frame != null) Prefs.saveLocation(ContrastAdjuster.LOC_KEY, frame.getLocation());
frame = WindowManager.getFrame("Threshold");
if (frame != null) Prefs.saveLocation(ThresholdAdjuster.LOC_KEY, frame.getLocation());
frame = WindowManager.getFrame("Results");
if (frame != null) {
Prefs.saveLocation(TextWindow.LOC_KEY, frame.getLocation());
Dimension d = frame.getSize();
Prefs.set(TextWindow.WIDTH_KEY, d.width);
Prefs.set(TextWindow.HEIGHT_KEY, d.height);
}
frame = WindowManager.getFrame("Log");
if (frame != null) {
Prefs.saveLocation(TextWindow.LOG_LOC_KEY, frame.getLocation());
Dimension d = frame.getSize();
Prefs.set(TextWindow.LOG_WIDTH_KEY, d.width);
Prefs.set(TextWindow.LOG_HEIGHT_KEY, d.height);
}
}
void createMask(ImagePlus imp) {
Roi roi = imp.getRoi();
boolean useInvertingLut = Prefs.useInvertingLut;
Prefs.useInvertingLut = false;
boolean selectAll =
roi != null
&& roi.getType() == Roi.RECTANGLE
&& roi.getBounds().width == imp.getWidth()
&& roi.getBounds().height == imp.getHeight()
&& imp.isThreshold();
if (roi == null || !(roi.isArea() || roi.getType() == Roi.POINT) || selectAll) {
createMaskFromThreshold(imp);
Prefs.useInvertingLut = useInvertingLut;
return;
}
ImagePlus maskImp = null;
Frame frame = WindowManager.getFrame("Mask");
if (frame != null && (frame instanceof ImageWindow))
maskImp = ((ImageWindow) frame).getImagePlus();
if (maskImp == null) {
ImageProcessor ip = new ByteProcessor(imp.getWidth(), imp.getHeight());
if (!Prefs.blackBackground) ip.invertLut();
maskImp = new ImagePlus("Mask", ip);
maskImp.show();
}
ImageProcessor ip = maskImp.getProcessor();
ip.setRoi(roi);
ip.setValue(255);
ip.fill(ip.getMask());
Calibration cal = imp.getCalibration();
if (cal.scaled()) {
Calibration cal2 = maskImp.getCalibration();
cal2.pixelWidth = cal.pixelWidth;
cal2.pixelHeight = cal.pixelHeight;
cal2.setUnit(cal.getUnit());
}
maskImp.updateAndRepaintWindow();
Prefs.useInvertingLut = useInvertingLut;
}