void showResults() {
int count = rt.getCounter();
// if (count==0) return;
boolean lastSlice = !processStack || slice == imp.getStackSize();
if ((showChoice == OVERLAY_OUTLINES || showChoice == OVERLAY_MASKS) && slice == 1 && count > 0)
imp.setOverlay(overlay);
else if (outlines != null && lastSlice) {
String title = imp != null ? imp.getTitle() : "Outlines";
String prefix;
if (showChoice == MASKS) prefix = "Mask of ";
else if (showChoice == ROI_MASKS) prefix = "Count Masks of ";
else prefix = "Drawing of ";
outlines.update(drawIP);
outputImage = new ImagePlus(prefix + title, outlines);
if (inSituShow) {
if (imp.getStackSize() == 1) Undo.setup(Undo.TRANSFORM, imp);
imp.setStack(null, outputImage.getStack());
} else if (!hideOutputImage) outputImage.show();
}
if (showResults && !processStack) {
TextPanel tp = IJ.getTextPanel();
if (beginningCount > 0 && tp != null && tp.getLineCount() != count) rt.show("Results");
Analyzer.firstParticle = beginningCount;
Analyzer.lastParticle = Analyzer.getCounter() - 1;
} else Analyzer.firstParticle = Analyzer.lastParticle = 0;
}
public void reduceHyperstack(ImagePlus imp, int factor, boolean reduceSlices) {
int channels = imp.getNChannels();
int slices = imp.getNSlices();
int frames = imp.getNFrames();
int zfactor = reduceSlices ? factor : 1;
int tfactor = reduceSlices ? 1 : factor;
ImageStack stack = imp.getStack();
ImageStack stack2 = new ImageStack(imp.getWidth(), imp.getHeight());
boolean virtual = stack.isVirtual();
int slices2 = slices / zfactor + ((slices % zfactor) != 0 ? 1 : 0);
int frames2 = frames / tfactor + ((frames % tfactor) != 0 ? 1 : 0);
int n = channels * slices2 * frames2;
int count = 1;
for (int t = 1; t <= frames; t += tfactor) {
for (int z = 1; z <= slices; z += zfactor) {
for (int c = 1; c <= channels; c++) {
int i = imp.getStackIndex(c, z, t);
IJ.showProgress(i, n);
ImageProcessor ip = stack.getProcessor(imp.getStackIndex(c, z, t));
// IJ.log(count++ +" "+i+" "+c+" "+z+" "+t);
stack2.addSlice(stack.getSliceLabel(i), ip);
}
}
}
imp.setStack(stack2, channels, slices2, frames2);
Calibration cal = imp.getCalibration();
if (cal.scaled()) cal.pixelDepth *= zfactor;
if (virtual) imp.setTitle(imp.getTitle());
IJ.showProgress(1.0);
}
public void reduceStack(ImagePlus imp, int factor) {
ImageStack stack = imp.getStack();
boolean virtual = stack.isVirtual();
int n = stack.getSize();
ImageStack stack2 = new ImageStack(stack.getWidth(), stack.getHeight());
for (int i = 1; i <= n; i += factor) {
if (virtual) IJ.showProgress(i, n);
stack2.addSlice(stack.getSliceLabel(i), stack.getProcessor(i));
}
imp.setStack(null, stack2);
if (virtual) {
IJ.showProgress(1.0);
imp.setTitle(imp.getTitle());
}
Calibration cal = imp.getCalibration();
if (cal.scaled()) cal.pixelDepth *= factor;
}
void createNewStack(ImagePlus imp, ImageProcessor ip) {
int nSlices = imp.getStackSize();
int w = imp.getWidth(), h = imp.getHeight();
ImagePlus imp2 = imp.createImagePlus();
Rectangle r = ip.getRoi();
boolean crop = r.width != imp.getWidth() || r.height != imp.getHeight();
ImageStack stack1 = imp.getStack();
ImageStack stack2 = new ImageStack(newWidth, newHeight);
ImageProcessor ip1, ip2;
int method = interpolationMethod;
if (w == 1 || h == 1) method = ImageProcessor.NONE;
for (int i = 1; i <= nSlices; i++) {
IJ.showStatus("Scale: " + i + "/" + nSlices);
ip1 = stack1.getProcessor(i);
String label = stack1.getSliceLabel(i);
if (crop) {
ip1.setRoi(r);
ip1 = ip1.crop();
}
ip1.setInterpolationMethod(method);
ip2 = ip1.resize(newWidth, newHeight, averageWhenDownsizing);
if (ip2 != null) stack2.addSlice(label, ip2);
IJ.showProgress(i, nSlices);
}
imp2.setStack(title, stack2);
Calibration cal = imp2.getCalibration();
if (cal.scaled()) {
cal.pixelWidth *= 1.0 / xscale;
cal.pixelHeight *= 1.0 / yscale;
}
IJ.showProgress(1.0);
int[] dim = imp.getDimensions();
imp2.setDimensions(dim[2], dim[3], dim[4]);
if (imp.isComposite()) {
imp2 = new CompositeImage(imp2, ((CompositeImage) imp).getMode());
((CompositeImage) imp2).copyLuts(imp);
}
if (imp.isHyperStack()) imp2.setOpenAsHyperStack(true);
if (newDepth > 0 && newDepth != oldDepth)
imp2 = (new Resizer()).zScale(imp2, newDepth, interpolationMethod);
if (imp2 != null) {
imp2.show();
imp2.changes = true;
}
}
void createNewStack(ImagePlus imp, ImageProcessor ip) {
Rectangle r = ip.getRoi();
boolean crop = r.width != imp.getWidth() || r.height != imp.getHeight();
int nSlices = imp.getStackSize();
ImageStack stack1 = imp.getStack();
ImageStack stack2 = new ImageStack(newWidth, newHeight);
ImageProcessor ip1, ip2;
boolean interp = interpolate;
if (imp.getWidth() == 1 || imp.getHeight() == 1) interp = false;
for (int i = 1; i <= nSlices; i++) {
IJ.showStatus("Scale: " + i + "/" + nSlices);
ip1 = stack1.getProcessor(i);
String label = stack1.getSliceLabel(i);
if (crop) {
ip1.setRoi(r);
ip1 = ip1.crop();
}
ip1.setInterpolate(interp);
ip2 = ip1.resize(newWidth, newHeight);
if (ip2 != null) stack2.addSlice(label, ip2);
IJ.showProgress(i, nSlices);
}
ImagePlus imp2 = imp.createImagePlus();
imp2.setStack(title, stack2);
Calibration cal = imp2.getCalibration();
if (cal.scaled()) {
cal.pixelWidth *= 1.0 / xscale;
cal.pixelHeight *= 1.0 / yscale;
}
int[] dim = imp.getDimensions();
imp2.setDimensions(dim[2], dim[3], dim[4]);
IJ.showProgress(1.0);
if (imp.isComposite()) {
imp2 = new CompositeImage(imp2, 0);
((CompositeImage) imp2).copyLuts(imp);
}
if (imp.isHyperStack()) imp2.setOpenAsHyperStack(true);
imp2.show();
imp2.changes = true;
}
public void run(String arg) {
int wOld, hOld, wNew, hNew;
boolean fIsStack = false;
ImagePlus imp = IJ.getImage();
wOld = imp.getWidth();
hOld = imp.getHeight();
ImageStack stackOld = imp.getStack();
if ((stackOld != null) && (stackOld.getSize() > 1)) fIsStack = true;
String[] sPositions = {
"Top-Left", "Top-Center", "Top-Right",
"Center-Left", "Center", "Center-Right",
"Bottom-Left", "Bottom-Center", "Bottom-Right"
};
String strTitle = fIsStack ? "Resize Stack Canvas" : "Resize Image Canvas";
GenericDialog gd = new GenericDialog(strTitle);
gd.addNumericField("Width:", wOld, 0, 5, "pixels");
gd.addNumericField("Height:", hOld, 0, 5, "pixels");
gd.addChoice("Position:", sPositions, sPositions[4]);
gd.addCheckbox("Zero Fill", zeroFill);
gd.showDialog();
if (gd.wasCanceled()) return;
wNew = (int) gd.getNextNumber();
hNew = (int) gd.getNextNumber();
int iPos = gd.getNextChoiceIndex();
zeroFill = gd.getNextBoolean();
Prefs.set("resizer.zero", zeroFill);
int xOff, yOff;
int xC = (wNew - wOld) / 2; // offset for centered
int xR = (wNew - wOld); // offset for right
int yC = (hNew - hOld) / 2; // offset for centered
int yB = (hNew - hOld); // offset for bottom
switch (iPos) {
case 0: // TL
xOff = 0;
yOff = 0;
break;
case 1: // TC
xOff = xC;
yOff = 0;
break;
case 2: // TR
xOff = xR;
yOff = 0;
break;
case 3: // CL
xOff = 0;
yOff = yC;
break;
case 4: // C
xOff = xC;
yOff = yC;
break;
case 5: // CR
xOff = xR;
yOff = yC;
break;
case 6: // BL
xOff = 0;
yOff = yB;
break;
case 7: // BC
xOff = xC;
yOff = yB;
break;
case 8: // BR
xOff = xR;
yOff = yB;
break;
default: // center
xOff = xC;
yOff = yC;
break;
}
if (fIsStack) {
ImageStack stackNew = expandStack(stackOld, wNew, hNew, xOff, yOff);
imp.setStack(null, stackNew);
} else {
if (!IJ.macroRunning()) Undo.setup(Undo.COMPOUND_FILTER, imp);
ImageWindow win = imp.getWindow();
if (win != null && (win instanceof PlotWindow)) ((PlotWindow) win).getPlot().setFrozen(true);
ImageProcessor newIP = expandImage(imp.getProcessor(), wNew, hNew, xOff, yOff);
imp.setProcessor(null, newIP);
if (!IJ.macroRunning()) Undo.setup(Undo.COMPOUND_FILTER_DONE, imp);
}
Overlay overlay = imp.getOverlay();
if (overlay != null) overlay.translate(xOff, yOff);
}