void drawRoiLabel(Graphics g, int index, Roi roi) {
   Rectangle r = roi.getBounds();
   int x = screenX(r.x);
   int y = screenY(r.y);
   double mag = getMagnification();
   int width = (int) (r.width * mag);
   int height = (int) (r.height * mag);
   int size = width > 40 && height > 40 ? 12 : 9;
   if (font != null) {
     g.setFont(font);
     size = font.getSize();
   } else if (size == 12) g.setFont(largeFont);
   else g.setFont(smallFont);
   boolean drawingList = index >= LIST_OFFSET;
   if (drawingList) index -= LIST_OFFSET;
   String label = "" + (index + 1);
   if (drawNames && roi.getName() != null) label = roi.getName();
   FontMetrics metrics = g.getFontMetrics();
   int w = metrics.stringWidth(label);
   x = x + width / 2 - w / 2;
   y = y + height / 2 + Math.max(size / 2, 6);
   int h = metrics.getAscent() + metrics.getDescent();
   if (bgColor != null) {
     g.setColor(bgColor);
     g.fillRoundRect(x - 1, y - h + 2, w + 1, h - 3, 5, 5);
   }
   if (!drawingList && labelRects != null && index < labelRects.length)
     labelRects[index] = new Rectangle(x - 1, y - h + 2, w + 1, h);
   g.setColor(labelColor);
   g.drawString(label, x, y - 2);
   g.setColor(defaultColor);
 }
 protected void handleRoiMouseDown(MouseEvent e) {
   int sx = e.getX();
   int sy = e.getY();
   int ox = offScreenX(sx);
   int oy = offScreenY(sy);
   Roi roi = imp.getRoi();
   int handle = roi != null ? roi.isHandle(sx, sy) : -1;
   boolean multiPointMode =
       roi != null
           && (roi instanceof PointRoi)
           && handle == -1
           && Toolbar.getToolId() == Toolbar.POINT
           && Toolbar.getMultiPointMode();
   if (multiPointMode) {
     imp.setRoi(((PointRoi) roi).addPoint(ox, oy));
     return;
   }
   setRoiModState(e, roi, handle);
   if (roi != null) {
     if (handle >= 0) {
       roi.mouseDownInHandle(handle, sx, sy);
       return;
     }
     Rectangle r = roi.getBounds();
     int type = roi.getType();
     if (type == Roi.RECTANGLE
         && r.width == imp.getWidth()
         && r.height == imp.getHeight()
         && roi.getPasteMode() == Roi.NOT_PASTING
         && !(roi instanceof ImageRoi)) {
       imp.killRoi();
       return;
     }
     if (roi.contains(ox, oy)) {
       if (roi.modState == Roi.NO_MODS) roi.handleMouseDown(sx, sy);
       else {
         imp.killRoi();
         imp.createNewRoi(sx, sy);
       }
       return;
     }
     if ((type == Roi.POLYGON || type == Roi.POLYLINE || type == Roi.ANGLE)
         && roi.getState() == roi.CONSTRUCTING) return;
     int tool = Toolbar.getToolId();
     if ((tool == Toolbar.POLYGON || tool == Toolbar.POLYLINE || tool == Toolbar.ANGLE)
         && !(IJ.shiftKeyDown() || IJ.altKeyDown())) {
       imp.killRoi();
       return;
     }
   }
   imp.createNewRoi(sx, sy);
 }
Beispiel #3
0
 public void run(String arg) {
   imp = IJ.getImage();
   if (imp == null) return;
   stackSize = imp.getStackSize();
   Roi roi = imp.getRoi();
   Calibration cal = imp.getCalibration();
   if (roi != null && roi.getBounds().equals(prevRoi) && cal.pixelWidth == prevPixelWidth)
     roi = null;
   if (roi != null) {
     boolean rectOrOval =
         roi != null && (roi.getType() == Roi.RECTANGLE || roi.getType() == Roi.OVAL);
     oval = rectOrOval && (roi.getType() == Roi.OVAL); // Handle existing oval ROI
     Rectangle r = roi.getBounds();
     width = r.width;
     height = r.height;
     xRoi = r.x;
     yRoi = r.y;
     if (scaledUnits && cal.scaled()) {
       xRoi = xRoi * cal.pixelWidth;
       yRoi = yRoi * cal.pixelHeight;
       width = width * cal.pixelWidth;
       height = height * cal.pixelHeight;
     }
     if (centered) { // Make xRoi and yRoi consistent when centered mode is active
       xRoi += width / 2.0;
       yRoi += height / 2.0;
     }
   } else if (!validDialogValues()) {
     width = imp.getWidth() / 2;
     height = imp.getHeight() / 2;
     xRoi = width / 2;
     yRoi = height / 2;
   }
   iSlice = imp.getCurrentSlice();
   showDialog();
 }
 public void mouseReleased(MouseEvent e) {
   flags = e.getModifiers();
   flags &= ~InputEvent.BUTTON1_MASK; // make sure button 1 bit is not set
   flags &= ~InputEvent.BUTTON2_MASK; // make sure button 2 bit is not set
   flags &= ~InputEvent.BUTTON3_MASK; // make sure button 3 bit is not set
   Roi roi = imp.getRoi();
   if (roi != null) {
     Rectangle r = roi.getBounds();
     int type = roi.getType();
     if ((r.width == 0 || r.height == 0)
         && !(type == Roi.POLYGON || type == Roi.POLYLINE || type == Roi.ANGLE || type == Roi.LINE)
         && !(roi instanceof TextRoi)
         && roi.getState() == roi.CONSTRUCTING
         && type != roi.POINT) imp.killRoi();
     else {
       roi.handleMouseUp(e.getX(), e.getY());
       if (roi.getType() == Roi.LINE && roi.getLength() == 0.0) imp.killRoi();
     }
   }
 }
Beispiel #5
0
 void drawRoi() {
   double xPxl = xRoi;
   double yPxl = yRoi;
   if (centered) {
     xPxl -= width / 2;
     yPxl -= height / 2;
   }
   double widthPxl = width;
   double heightPxl = height;
   Calibration cal = imp.getCalibration();
   if (scaledUnits && cal.scaled()) {
     xPxl /= cal.pixelWidth;
     yPxl /= cal.pixelHeight;
     widthPxl /= cal.pixelWidth;
     heightPxl /= cal.pixelHeight;
     prevPixelWidth = cal.pixelWidth;
   }
   Roi roi;
   if (oval) roi = new OvalRoi(xPxl, yPxl, widthPxl, heightPxl);
   else roi = new Roi(xPxl, yPxl, widthPxl, heightPxl);
   imp.setRoi(roi);
   prevRoi = roi.getBounds();
   // prevPixelWidth = cal.pixelWidth;
 }
Beispiel #6
0
  String getInfo(ImagePlus imp, ImageProcessor ip) {
    String s = new String("\n");
    s += "Title: " + imp.getTitle() + "\n";
    Calibration cal = imp.getCalibration();
    int stackSize = imp.getStackSize();
    int channels = imp.getNChannels();
    int slices = imp.getNSlices();
    int frames = imp.getNFrames();
    int digits = imp.getBitDepth() == 32 ? 4 : 0;
    if (cal.scaled()) {
      String unit = cal.getUnit();
      String units = cal.getUnits();
      s +=
          "Width:  "
              + IJ.d2s(imp.getWidth() * cal.pixelWidth, 2)
              + " "
              + units
              + " ("
              + imp.getWidth()
              + ")\n";
      s +=
          "Height:  "
              + IJ.d2s(imp.getHeight() * cal.pixelHeight, 2)
              + " "
              + units
              + " ("
              + imp.getHeight()
              + ")\n";
      if (slices > 1)
        s += "Depth:  " + IJ.d2s(slices * cal.pixelDepth, 2) + " " + units + " (" + slices + ")\n";
      double xResolution = 1.0 / cal.pixelWidth;
      double yResolution = 1.0 / cal.pixelHeight;
      int places = Tools.getDecimalPlaces(xResolution, yResolution);
      if (xResolution == yResolution)
        s += "Resolution:  " + IJ.d2s(xResolution, places) + " pixels per " + unit + "\n";
      else {
        s += "X Resolution:  " + IJ.d2s(xResolution, places) + " pixels per " + unit + "\n";
        s += "Y Resolution:  " + IJ.d2s(yResolution, places) + " pixels per " + unit + "\n";
      }
    } else {
      s += "Width:  " + imp.getWidth() + " pixels\n";
      s += "Height:  " + imp.getHeight() + " pixels\n";
      if (stackSize > 1) s += "Depth:  " + slices + " pixels\n";
    }
    if (stackSize > 1)
      s +=
          "Voxel size: "
              + d2s(cal.pixelWidth)
              + "x"
              + d2s(cal.pixelHeight)
              + "x"
              + d2s(cal.pixelDepth)
              + " "
              + cal.getUnit()
              + "\n";
    else
      s +=
          "Pixel size: "
              + d2s(cal.pixelWidth)
              + "x"
              + d2s(cal.pixelHeight)
              + " "
              + cal.getUnit()
              + "\n";

    s += "ID: " + imp.getID() + "\n";
    String zOrigin = stackSize > 1 || cal.zOrigin != 0.0 ? "," + d2s(cal.zOrigin) : "";
    s += "Coordinate origin:  " + d2s(cal.xOrigin) + "," + d2s(cal.yOrigin) + zOrigin + "\n";
    int type = imp.getType();
    switch (type) {
      case ImagePlus.GRAY8:
        s += "Bits per pixel: 8 ";
        String lut = "LUT";
        if (imp.getProcessor().isColorLut()) lut = "color " + lut;
        else lut = "grayscale " + lut;
        if (imp.isInvertedLut()) lut = "inverting " + lut;
        s += "(" + lut + ")\n";
        if (imp.getNChannels() > 1) s += displayRanges(imp);
        else s += "Display range: " + (int) ip.getMin() + "-" + (int) ip.getMax() + "\n";
        break;
      case ImagePlus.GRAY16:
      case ImagePlus.GRAY32:
        if (type == ImagePlus.GRAY16) {
          String sign = cal.isSigned16Bit() ? "signed" : "unsigned";
          s += "Bits per pixel: 16 (" + sign + ")\n";
        } else s += "Bits per pixel: 32 (float)\n";
        if (imp.getNChannels() > 1) s += displayRanges(imp);
        else {
          s += "Display range: ";
          double min = ip.getMin();
          double max = ip.getMax();
          if (cal.calibrated()) {
            min = cal.getCValue((int) min);
            max = cal.getCValue((int) max);
          }
          s += IJ.d2s(min, digits) + " - " + IJ.d2s(max, digits) + "\n";
        }
        break;
      case ImagePlus.COLOR_256:
        s += "Bits per pixel: 8 (color LUT)\n";
        break;
      case ImagePlus.COLOR_RGB:
        s += "Bits per pixel: 32 (RGB)\n";
        break;
    }
    double interval = cal.frameInterval;
    double fps = cal.fps;
    if (stackSize > 1) {
      ImageStack stack = imp.getStack();
      int slice = imp.getCurrentSlice();
      String number = slice + "/" + stackSize;
      String label = stack.getShortSliceLabel(slice);
      if (label != null && label.length() > 0) label = " (" + label + ")";
      else label = "";
      if (interval > 0.0 || fps != 0.0) {
        s += "Frame: " + number + label + "\n";
        if (fps != 0.0) {
          String sRate =
              Math.abs(fps - Math.round(fps)) < 0.00001 ? IJ.d2s(fps, 0) : IJ.d2s(fps, 5);
          s += "Frame rate: " + sRate + " fps\n";
        }
        if (interval != 0.0)
          s +=
              "Frame interval: "
                  + ((int) interval == interval ? IJ.d2s(interval, 0) : IJ.d2s(interval, 5))
                  + " "
                  + cal.getTimeUnit()
                  + "\n";
      } else s += "Image: " + number + label + "\n";
      if (imp.isHyperStack()) {
        if (channels > 1) s += "  Channel: " + imp.getChannel() + "/" + channels + "\n";
        if (slices > 1) s += "  Slice: " + imp.getSlice() + "/" + slices + "\n";
        if (frames > 1) s += "  Frame: " + imp.getFrame() + "/" + frames + "\n";
      }
      if (imp.isComposite()) {
        if (!imp.isHyperStack() && channels > 1) s += "  Channels: " + channels + "\n";
        String mode = ((CompositeImage) imp).getModeAsString();
        s += "  Composite mode: \"" + mode + "\"\n";
      }
    }

    if (ip.getMinThreshold() == ImageProcessor.NO_THRESHOLD) s += "No Threshold\n";
    else {
      double lower = ip.getMinThreshold();
      double upper = ip.getMaxThreshold();
      int dp = digits;
      if (cal.calibrated()) {
        lower = cal.getCValue((int) lower);
        upper = cal.getCValue((int) upper);
        dp = cal.isSigned16Bit() ? 0 : 4;
      }
      s += "Threshold: " + IJ.d2s(lower, dp) + "-" + IJ.d2s(upper, dp) + "\n";
    }
    ImageCanvas ic = imp.getCanvas();
    double mag = ic != null ? ic.getMagnification() : 1.0;
    if (mag != 1.0) s += "Magnification: " + IJ.d2s(mag, 2) + "\n";

    if (cal.calibrated()) {
      s += " \n";
      int curveFit = cal.getFunction();
      s += "Calibration Function: ";
      if (curveFit == Calibration.UNCALIBRATED_OD) s += "Uncalibrated OD\n";
      else if (curveFit == Calibration.CUSTOM) s += "Custom lookup table\n";
      else s += CurveFitter.fList[curveFit] + "\n";
      double[] c = cal.getCoefficients();
      if (c != null) {
        s += "  a: " + IJ.d2s(c[0], 6) + "\n";
        s += "  b: " + IJ.d2s(c[1], 6) + "\n";
        if (c.length >= 3) s += "  c: " + IJ.d2s(c[2], 6) + "\n";
        if (c.length >= 4) s += "  c: " + IJ.d2s(c[3], 6) + "\n";
        if (c.length >= 5) s += "  c: " + IJ.d2s(c[4], 6) + "\n";
      }
      s += "  Unit: \"" + cal.getValueUnit() + "\"\n";
    } else s += "Uncalibrated\n";

    FileInfo fi = imp.getOriginalFileInfo();
    if (fi != null) {
      if (fi.url != null && !fi.url.equals("")) s += "URL: " + fi.url + "\n";
      else if (fi.directory != null && fi.fileName != null)
        s += "Path: " + fi.directory + fi.fileName + "\n";
    }

    ImageWindow win = imp.getWindow();
    if (win != null) {
      Point loc = win.getLocation();
      Dimension screen = IJ.getScreenSize();
      s +=
          "Screen location: "
              + loc.x
              + ","
              + loc.y
              + " ("
              + screen.width
              + "x"
              + screen.height
              + ")\n";
    }

    Overlay overlay = imp.getOverlay();
    if (overlay != null) {
      String hidden = imp.getHideOverlay() ? " (hidden)" : " ";
      int n = overlay.size();
      String elements = n == 1 ? " element" : " elements";
      s += "Overlay: " + n + elements + (imp.getHideOverlay() ? " (hidden)" : "") + "\n";
    } else s += "No Overlay\n";

    Roi roi = imp.getRoi();
    if (roi == null) {
      if (cal.calibrated()) s += " \n";
      s += "No Selection\n";
    } else if (roi instanceof EllipseRoi) {
      s += "\nElliptical Selection\n";
      double[] p = ((EllipseRoi) roi).getParams();
      double dx = p[2] - p[0];
      double dy = p[3] - p[1];
      double major = Math.sqrt(dx * dx + dy * dy);
      s += "  Major: " + IJ.d2s(major, 2) + "\n";
      s += "  Minor: " + IJ.d2s(major * p[4], 2) + "\n";
      s += "  X1: " + IJ.d2s(p[0], 2) + "\n";
      s += "  Y1: " + IJ.d2s(p[1], 2) + "\n";
      s += "  X2: " + IJ.d2s(p[2], 2) + "\n";
      s += "  Y2: " + IJ.d2s(p[3], 2) + "\n";
      s += "  Aspect ratio: " + IJ.d2s(p[4], 2) + "\n";
    } else {
      s += " \n";
      s += roi.getTypeAsString() + " Selection";
      String points = null;
      if (roi instanceof PointRoi) {
        int npoints = ((PolygonRoi) roi).getNCoordinates();
        String suffix = npoints > 1 ? "s)" : ")";
        points = " (" + npoints + " point" + suffix;
      }
      String name = roi.getName();
      if (name != null) {
        s += " (\"" + name + "\")";
        if (points != null) s += "\n " + points;
      } else if (points != null) s += points;
      s += "\n";
      Rectangle r = roi.getBounds();
      if (roi instanceof Line) {
        Line line = (Line) roi;
        s += "  X1: " + IJ.d2s(line.x1d * cal.pixelWidth) + "\n";
        s += "  Y1: " + IJ.d2s(yy(line.y1d, imp) * cal.pixelHeight) + "\n";
        s += "  X2: " + IJ.d2s(line.x2d * cal.pixelWidth) + "\n";
        s += "  Y2: " + IJ.d2s(yy(line.y2d, imp) * cal.pixelHeight) + "\n";
      } else if (cal.scaled()) {
        s += "  X: " + IJ.d2s(cal.getX(r.x)) + " (" + r.x + ")\n";
        s += "  Y: " + IJ.d2s(cal.getY(r.y, imp.getHeight())) + " (" + r.y + ")\n";
        s += "  Width: " + IJ.d2s(r.width * cal.pixelWidth) + " (" + r.width + ")\n";
        s += "  Height: " + IJ.d2s(r.height * cal.pixelHeight) + " (" + r.height + ")\n";
      } else {
        s += "  X: " + r.x + "\n";
        s += "  Y: " + yy(r.y, imp) + "\n";
        s += "  Width: " + r.width + "\n";
        s += "  Height: " + r.height + "\n";
      }
    }

    return s;
  }
  public void mousePressed(MouseEvent e) {
    // if (ij==null) return;
    showCursorStatus = true;
    int toolID = Toolbar.getToolId();
    ImageWindow win = imp.getWindow();
    if (win != null && win.running2 && toolID != Toolbar.MAGNIFIER) {
      if (win instanceof StackWindow) ((StackWindow) win).setAnimate(false);
      else win.running2 = false;
      return;
    }

    int x = e.getX();
    int y = e.getY();
    flags = e.getModifiers();
    // IJ.log("Mouse pressed: " + e.isPopupTrigger() + "  " + ij.modifiers(flags));
    // if (toolID!=Toolbar.MAGNIFIER && e.isPopupTrigger()) {
    if (toolID != Toolbar.MAGNIFIER
        && (e.isPopupTrigger() || (!IJ.isMacintosh() && (flags & Event.META_MASK) != 0))) {
      handlePopupMenu(e);
      return;
    }

    int ox = offScreenX(x);
    int oy = offScreenY(y);
    xMouse = ox;
    yMouse = oy;
    if (IJ.spaceBarDown()) {
      // temporarily switch to "hand" tool of space bar down
      setupScroll(ox, oy);
      return;
    }
    if (showAllROIs) {
      Roi roi = imp.getRoi();
      if (!(roi != null && (roi.contains(ox, oy) || roi.isHandle(x, y) >= 0))
          && roiManagerSelect(x, y)) return;
    }
    if (customRoi && overlay != null) return;

    switch (toolID) {
      case Toolbar.MAGNIFIER:
        if (IJ.shiftKeyDown()) zoomToSelection(ox, oy);
        else if ((flags & (Event.ALT_MASK | Event.META_MASK | Event.CTRL_MASK)) != 0) {
          // IJ.run("Out");
          zoomOut(x, y);
          if (getMagnification() < 1.0) imp.repaintWindow();
        } else {
          // IJ.run("In");
          zoomIn(x, y);
          if (getMagnification() <= 1.0) imp.repaintWindow();
        }
        break;
      case Toolbar.HAND:
        setupScroll(ox, oy);
        break;
      case Toolbar.DROPPER:
        setDrawingColor(ox, oy, IJ.altKeyDown());
        break;
      case Toolbar.WAND:
        Roi roi = imp.getRoi();
        if (roi != null && roi.contains(ox, oy)) {
          Rectangle r = roi.getBounds();
          if (r.width == imageWidth && r.height == imageHeight) imp.killRoi();
          else if (!e.isAltDown()) {
            handleRoiMouseDown(e);
            return;
          }
        }
        if (roi != null) {
          int handle = roi.isHandle(x, y);
          if (handle >= 0) {
            roi.mouseDownInHandle(handle, x, y);
            return;
          }
        }
        setRoiModState(e, roi, -1);
        String mode = WandToolOptions.getMode();
        double tolerance = WandToolOptions.getTolerance();
        int npoints = IJ.doWand(ox, oy, tolerance, mode);
        if (Recorder.record && npoints > 0) {
          if (tolerance == 0.0 && mode.equals("Legacy")) Recorder.record("doWand", ox, oy);
          else
            Recorder.recordString(
                "doWand(" + ox + ", " + oy + ", " + tolerance + ", \"" + mode + "\");\n");
        }
        break;
      case Toolbar.OVAL:
        if (Toolbar.getBrushSize() > 0) new RoiBrush();
        else handleRoiMouseDown(e);
        break;
      case Toolbar.SPARE1:
      case Toolbar.SPARE2:
      case Toolbar.SPARE3:
      case Toolbar.SPARE4:
      case Toolbar.SPARE5:
      case Toolbar.SPARE6:
      case Toolbar.SPARE7:
      case Toolbar.SPARE8:
      case Toolbar.SPARE9:
        Toolbar.getInstance().runMacroTool(toolID);
        break;
      default: // selection tool
        handleRoiMouseDown(e);
    }
  }