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(); }
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); }
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); }