Example #1
0
 void lineToArea(ImagePlus imp) {
   Roi roi = imp.getRoi();
   if (roi == null || !roi.isLine()) {
     IJ.error("Line to Area", "Line selection required");
     return;
   }
   Undo.setup(Undo.ROI, imp);
   Roi roi2 = null;
   if (roi.getType() == Roi.LINE) {
     double width = roi.getStrokeWidth();
     if (width <= 1.0) roi.setStrokeWidth(1.0000001);
     FloatPolygon p = roi.getFloatPolygon();
     roi.setStrokeWidth(width);
     roi2 = new PolygonRoi(p, Roi.POLYGON);
     roi2.setDrawOffset(roi.getDrawOffset());
   } else {
     ImageProcessor ip2 = new ByteProcessor(imp.getWidth(), imp.getHeight());
     ip2.setColor(255);
     roi.drawPixels(ip2);
     // new ImagePlus("ip2", ip2.duplicate()).show();
     ip2.setThreshold(255, 255, ImageProcessor.NO_LUT_UPDATE);
     ThresholdToSelection tts = new ThresholdToSelection();
     roi2 = tts.convert(ip2);
   }
   transferProperties(roi, roi2);
   roi2.setStrokeWidth(0);
   Color c = roi2.getStrokeColor();
   if (c != null) // remove any transparency
   roi2.setStrokeColor(new Color(c.getRed(), c.getGreen(), c.getBlue()));
   imp.setRoi(roi2);
   Roi.previousRoi = (Roi) roi.clone();
 }
Example #2
0
 void addSelection() {
   ImagePlus imp = IJ.getImage();
   String macroOptions = Macro.getOptions();
   if (macroOptions != null && IJ.macroRunning() && macroOptions.indexOf("remove") != -1) {
     imp.setOverlay(null);
     return;
   }
   Roi roi = imp.getRoi();
   if (roi == null && imp.getOverlay() != null) {
     GenericDialog gd = new GenericDialog("No Selection");
     gd.addMessage("\"Overlay>Add\" requires a selection.");
     gd.setInsets(15, 40, 0);
     gd.addCheckbox("Remove existing overlay", false);
     gd.showDialog();
     if (gd.wasCanceled()) return;
     if (gd.getNextBoolean()) imp.setOverlay(null);
     return;
   }
   if (roi == null) {
     IJ.error("This command requires a selection.");
     return;
   }
   roi = (Roi) roi.clone();
   if (roi.getStrokeColor() == null) roi.setStrokeColor(Toolbar.getForegroundColor());
   int width = Line.getWidth();
   Rectangle bounds = roi.getBounds();
   boolean tooWide = width > Math.max(bounds.width, bounds.height) / 3.0;
   if (roi.getStroke() == null && width > 1 && !tooWide) roi.setStrokeWidth(Line.getWidth());
   Overlay overlay = imp.getOverlay();
   if (overlay != null && overlay.size() > 0 && !roi.isDrawingTool()) {
     Roi roi2 = overlay.get(overlay.size() - 1);
     if (roi.getStroke() == null) roi.setStrokeWidth(roi2.getStrokeWidth());
     if (roi.getFillColor() == null) roi.setFillColor(roi2.getFillColor());
   }
   boolean points = roi instanceof PointRoi && ((PolygonRoi) roi).getNCoordinates() > 1;
   if (points) roi.setStrokeColor(Color.red);
   if (!IJ.altKeyDown() && !(roi instanceof Arrow)) {
     RoiProperties rp = new RoiProperties("Add to Overlay", roi);
     if (!rp.showDialog()) return;
   }
   String name = roi.getName();
   boolean newOverlay = name != null && name.equals("new-overlay");
   if (overlay == null || newOverlay) overlay = new Overlay();
   overlay.add(roi);
   imp.setOverlay(overlay);
   overlay2 = overlay;
   if (points || (roi instanceof ImageRoi) || (roi instanceof Arrow)) imp.killRoi();
   Undo.setup(Undo.OVERLAY_ADDITION, imp);
 }
 void drawOutline(ImageProcessor ip, Roi roi, int count) {
   if (showChoice == OVERLAY_OUTLINES || showChoice == OVERLAY_MASKS) {
     if (overlay == null) {
       overlay = new Overlay();
       overlay.drawLabels(true);
       overlay.setLabelFont(new Font("SansSerif", Font.PLAIN, fontSize));
     }
     Roi roi2 = (Roi) roi.clone();
     roi2.setStrokeColor(Color.cyan);
     if (lineWidth != 1) roi2.setStrokeWidth(lineWidth);
     if (showChoice == OVERLAY_MASKS) roi2.setFillColor(Color.cyan);
     overlay.add(roi2);
   } else {
     Rectangle r = roi.getBounds();
     int nPoints = ((PolygonRoi) roi).getNCoordinates();
     int[] xp = ((PolygonRoi) roi).getXCoordinates();
     int[] yp = ((PolygonRoi) roi).getYCoordinates();
     int x = r.x, y = r.y;
     if (!inSituShow) ip.setValue(0.0);
     ip.moveTo(x + xp[0], y + yp[0]);
     for (int i = 1; i < nPoints; i++) ip.lineTo(x + xp[i], y + yp[i]);
     ip.lineTo(x + xp[0], y + yp[0]);
     if (showChoice != BARE_OUTLINES) {
       String s = ResultsTable.d2s(count, 0);
       ip.moveTo(r.x + r.width / 2 - ip.getStringWidth(s) / 2, r.y + r.height / 2 + fontSize / 2);
       if (!inSituShow) ip.setValue(1.0);
       ip.drawString(s);
     }
   }
 }
 /**
  * Saves statistics for one particle in a results table. This is a method subclasses may want to
  * override.
  */
 protected void saveResults(ImageStatistics stats, Roi roi) {
   analyzer.saveResults(stats, roi);
   if (recordStarts) {
     rt.addValue("XStart", stats.xstart);
     rt.addValue("YStart", stats.ystart);
   }
   if (addToManager) {
     if (roiManager == null) {
       if (Macro.getOptions() != null && Interpreter.isBatchMode())
         roiManager = Interpreter.getBatchModeRoiManager();
       if (roiManager == null) {
         Frame frame = WindowManager.getFrame("ROI Manager");
         if (frame == null) IJ.run("ROI Manager...");
         frame = WindowManager.getFrame("ROI Manager");
         if (frame == null || !(frame instanceof RoiManager)) {
           addToManager = false;
           return;
         }
         roiManager = (RoiManager) frame;
       }
       if (resetCounter) roiManager.runCommand("reset");
     }
     if (imp.getStackSize() > 1) roi.setPosition(imp.getCurrentSlice());
     if (lineWidth != 1) roi.setStrokeWidth(lineWidth);
     roiManager.add(imp, roi, rt.getCounter());
   }
   if (showResults) rt.addResults();
 }
 private void drawRoi(Roi roi, Graphics g) {
   if (roi == currentRoi) {
     Color lineColor = roi.getStrokeColor();
     Color fillColor = roi.getFillColor();
     float lineWidth = roi.getStrokeWidth();
     roi.setStrokeColor(null);
     roi.setFillColor(null);
     boolean strokeSet = roi.getStroke() != null;
     if (strokeSet) roi.setStrokeWidth(1);
     roi.draw(g);
     roi.setStrokeColor(lineColor);
     if (strokeSet) roi.setStrokeWidth(lineWidth);
     roi.setFillColor(fillColor);
     currentRoi = null;
   } else roi.draw(g);
 }
Example #6
0
 void interpolate() {
   Roi roi = imp.getRoi();
   if (roi == null) {
     noRoi("Interpolate");
     return;
   }
   if (roi.getType() == Roi.POINT) return;
   if (IJ.isMacro() && Macro.getOptions() == null) Macro.setOptions("interval=1");
   GenericDialog gd = new GenericDialog("Interpolate");
   gd.addNumericField("Interval:", 1.0, 1, 4, "pixel");
   gd.addCheckbox("Smooth", IJ.isMacro() ? false : smooth);
   gd.showDialog();
   if (gd.wasCanceled()) return;
   double interval = gd.getNextNumber();
   smooth = gd.getNextBoolean();
   Undo.setup(Undo.ROI, imp);
   FloatPolygon poly = roi.getInterpolatedPolygon(interval, smooth);
   int t = roi.getType();
   int type = roi.isLine() ? Roi.FREELINE : Roi.FREEROI;
   if (t == Roi.POLYGON && interval > 1.0) type = Roi.POLYGON;
   if ((t == Roi.RECTANGLE || t == Roi.OVAL || t == Roi.FREEROI) && interval >= 5.0)
     type = Roi.POLYGON;
   if ((t == Roi.LINE || t == Roi.FREELINE) && interval >= 5.0) type = Roi.POLYLINE;
   if (t == Roi.POLYLINE && interval >= 1.0) type = Roi.POLYLINE;
   ImageCanvas ic = imp.getCanvas();
   if (poly.npoints <= 150 && ic != null && ic.getMagnification() >= 12.0)
     type = roi.isLine() ? Roi.POLYLINE : Roi.POLYGON;
   Roi p = new PolygonRoi(poly, type);
   if (roi.getStroke() != null) p.setStrokeWidth(roi.getStrokeWidth());
   p.setStrokeColor(roi.getStrokeColor());
   p.setName(roi.getName());
   transferProperties(roi, p);
   imp.setRoi(p);
 }