Class ZAxisProfiler

ij/src/main/java/ij/plugin/ZAxisProfiler.java:14–271

Implements the Image/Stacks/Plot Z-axis Profile command, which plots the selection mean gray value versus slice number.

	which plots the selection mean gray value versus slice number.
*/
public class ZAxisProfiler implements PlugIn, Measurements, PlotMaker {
	private static String[] choices = {"time", "z-axis"};
	private static String choice = choices[0];
	private boolean showingDialog;
	private ImagePlus imp;
	private boolean isPlotMaker;
	private boolean timeProfile;
	private boolean firstTime = true;
	private String options;
	
	/** Returns a Plot of the selection mean gray value versus slice number. */
	public static Plot getPlot(ImagePlus imp) {
		return getPlot(imp, "time");
	}

	/** Returns a Plot of the selection mean versus slice number for the
		specified hyperstack, where 'options' can be "time" or "z-axis". */
	public static Plot getPlot(ImagePlus imp, String options) {
		ZAxisProfiler zap = new ZAxisProfiler();
		zap.imp = imp;
		zap.options = options;
		zap.isPlotMaker = true;
		Plot plot = zap.getPlot();
		return plot;
	}

	public void run(String arg) {
		imp = IJ.getImage();
		if (imp.getStackSize()<2) {
			IJ.error("ZAxisProfiler", "This command requires a stack.");
			return;
		}
		isPlotMaker = true;
		Plot plot = getPlot();
		if (plot!=null) {
			if (isPlotMaker)
				plot.setPlotMaker(this);
			plot.show();
		}
	}
		
	public Plot getPlot() {
		Roi roi = imp.getRoi();
		ImageProcessor ip = imp.getProcessor();
		double minThreshold = ip.getMinThreshold();
		double maxThreshold = ip.getMaxThreshold();
		float[] y;
		boolean hyperstack = imp.isHyperStack();
		if (hyperstack)
			y = getHyperstackProfile(imp, minThreshold, maxThreshold);
		else
			y = getZAxisProfile(imp, minThreshold, maxThreshold);
		if (y==null)
			return null;
		float[] x = new float[y.length];
		
		String xAxisLabel = showingDialog&&choice.equals(choices[0])?"Frame":"Slice";
		Calibration cal = imp.getCalibration();