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package ij.plugin;
import ij.*;
import ij.gui.GenericDialog;
import ij.process.*;
import ij.measure.Calibration;
/** This plugin implements the Image/Stacks/Tools/Grouped Z Project command. */
public class GroupedZProjector implements PlugIn {
private static int method = ZProjector.AVG_METHOD;
private int groupSize;
public void run(String arg) {
ImagePlus imp = IJ.getImage();
int size = imp.getStackSize();
if (size==1) {
IJ.error("Z Project", "This command requires a stack");
return;
}
if (imp.isHyperStack()) {
new ZProjector().run("");
return;
}
if (!showDialog(imp))
return;
ImagePlus imp2 = groupZProject(imp, method, groupSize);
imp2.setCalibration(imp.getCalibration());
Calibration cal = imp2.getCalibration();
cal.pixelDepth *= groupSize;
if (imp!=null)
imp2.show();
}
public ImagePlus groupZProject(ImagePlus imp, int method, int groupSize) {
if (method<0 || method>=ZProjector.METHODS.length)
return null;
int[] dim = imp.getDimensions();
int projectedStackSize = imp.getStackSize()/groupSize;
imp.setDimensions(1, groupSize, projectedStackSize);
ZProjector zp = new ZProjector(imp);
zp.setMethod(method);
zp.setStartSlice(1);
zp.setStopSlice(groupSize);
zp.doHyperStackProjection(true);
imp.setDimensions(dim[2], dim[3], dim[4]);
ImagePlus zProjectorOutput = zp.getProjection();
int[] zProjectDim = zProjectorOutput.getDimensions();
for (int i=2; i<dim.length; i++) {
if (dim[i] != 1)
zProjectDim[i] = projectedStackSize;
else
zProjectDim[i] = 1;
}
// Fix dimensions for output ImagePlus
zProjectorOutput.setDimensions(zProjectDim[2], zProjectDim[3], zProjectDim[4]);
return zProjectorOutput;
}
boolean showDialog(ImagePlus imp) {
int size = imp.getStackSize();
GenericDialog gd = new GenericDialog("Z Project");
gd.addChoice("Projection method:", ZProjector.METHODS, ZProjector.METHODS[method]);
gd.addNumericField("Group size:", size, 0);
String factors = "Valid factors: ";
int i = 1, count = 0;
while (i <= size && count<10) {
if (size % i == 0) {
count++; factors += " "+ i +",";
}
i++;
}
gd.setInsets(10,0,0);
gd.addMessage(factors+"...");
gd.showDialog();
if (gd.wasCanceled())
return false;
method = gd.getNextChoiceIndex();
groupSize = (int)gd.getNextNumber();
if (groupSize<1 || groupSize>size || (size%groupSize)!=0) {
IJ.error("ZProject", "Group size must divide evenly into the stack size.");
return false;
}
return true;
}
}
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