Java Code Examples for ij.gui.Plot#setLimits()

static public Plot makePlot(final CATAParameters cp, final String name, final VectorString3D c) {
	final double[] stdDev = c.getStdDevAtEachPoint();
	if (null == stdDev) return null;
	final double[] index = new double[stdDev.length];
	for (int i=0; i<index.length; i++) index[i] = i;
	Utils.log2("name is " + name);
	Utils.log2("c is " + c);
	Utils.log2("cp is " + cp);
	Utils.log2("stdDev is " + stdDev);
	Utils.log2("c.getCalibrationCopy() is " + c.getCalibrationCopy());
	Utils.log2("c.getDelta() is " + c.getDelta());
	final Calibration cal = c.getCalibrationCopy();
	if (null == cal) Utils.log2("WARNING null calibration!");
	final Plot plot = new Plot(name, name + " -- Point index (delta: " + Utils.cutNumber(c.getDelta(), 2) + " " + (null == cal ? "pixels" : cal.getUnits()) + ")", "Std Dev", index, stdDev);
	plot.setLimits(0, cp.plot_max_x, 0, cp.plot_max_y);
	plot.setSize(cp.plot_width, cp.plot_height);
	plot.setLineWidth(2);
	return plot;
}
 

@Override
public void drawSigmaPlots() {
    // config
    SigmaPlotConfig cfg = new SigmaPlotConfig();
    cfg.allFrames = allFrames;
    cfg.allSigma1s = allSigma1s;
    cfg.allSigma2s = allSigma2s;
    cfg.allPolynomsS1 = allPolynomsS1;
    cfg.allPolynomsS2 = allPolynomsS2;
    cfg.polynomS1Final = polynomS1Final;
    cfg.polynomS2Final = polynomS2Final;
    cfg.allSigma1sColor = new Color(255, 200, 200);
    cfg.allSigma2sColor = new Color(200, 200, 255);
    cfg.allPolynomsS1Color = new Color(255, 230, 230);
    cfg.allPolynomsS2Color = new Color(230, 230, 255);
    cfg.polynomS1FinalColor = new Color(255, 0, 0);
    cfg.polynomS2FinalColor = new Color(0, 0, 255);
    cfg.legend1X = 0.1;
    cfg.legend1Y = 0.8;
    cfg.legend1Label = "sigma1";
    cfg.legend2X = 0.1;
    cfg.legend2Y = 0.9;
    cfg.legend2Label = "sigma2";

    // create and setup plot
    Plot plot = new Plot("Sigma", "z [nm]", "sigma [px]", null, (float[]) null);
    plot.setSize(1024, 768);
    plot.setLimits(-2*zRange, +2*zRange, 0, stageStep);
    double[] xVals = new double[(int)(2*zRange/stageStep) * 2 + 1];
    for(int val = -2*(int)zRange, i = 0; val <= +2*(int)zRange; val += stageStep, i++) {
        xVals[i] = val;
    }
    plot.draw();

    // plot
    drawSigmaPlots(plot, xVals, cfg);

    // display
    plot.show();
}
 

public static void showDriftPlot(DriftResults driftCorrection) {
    int minFrame = driftCorrection.getMinFrame();
    int maxFrame = driftCorrection.getMaxFrame();
    int gridTicks = 200;
    double tickStep = (maxFrame - minFrame) / (double) gridTicks;
    double[] grid = new double[gridTicks];
    double[] driftX = new double[gridTicks];
    double[] driftY = new double[gridTicks];
    for(int i = 0; i < gridTicks; i++) {
        grid[i] = i * tickStep + minFrame;
        Point2D.Double offset = driftCorrection.getInterpolatedDrift(grid[i]);
        driftX[i] = offset.x;
        driftY[i] = offset.y;
    }
    Plot plot = new Plot("Drift", "frame", "drift [" + driftCorrection.getUnits() + "]", (float[]) null, null);
    if(driftCorrection.getDriftDataX().length > 50) {
        plot.setFrameSize(1280, 720);
    }
    plot.setLimits(minFrame, driftCorrection.getMaxFrame(),
            Math.min(VectorMath.min(driftCorrection.getDriftDataX()), VectorMath.min(driftCorrection.getDriftDataY())),
            Math.max(VectorMath.max(driftCorrection.getDriftDataX()), VectorMath.max(driftCorrection.getDriftDataY())));
    plot.setColor(new Color(255, 128, 128));
    plot.addPoints(driftCorrection.getDriftDataFrame(), driftCorrection.getDriftDataX(), Plot.CROSS);
    plot.draw();
    plot.setColor(new Color(128, 255, 128));
    plot.addPoints(driftCorrection.getDriftDataFrame(), driftCorrection.getDriftDataY(), Plot.CROSS);
    plot.setColor(Color.red);
    plot.addPoints(grid, driftX, Plot.LINE);
    plot.addLabel(0.05, 0.8, "x drift");
    plot.setColor(Color.green);
    plot.addPoints(grid, driftY, Plot.LINE);
    plot.addLabel(0.05, 0.9, "y drift");
    plot.show();
}
 

@Override
public void drawSigmaPlots() {
    // config plane 1
    SigmaPlotConfig cfg1 = new SigmaPlotConfig();
    cfg1.allFrames = allFrames1;
    cfg1.allSigma1s = allSigma11s;
    cfg1.allSigma2s = allSigma12s;
    cfg1.allPolynomsS1 = allPolyS11;
    cfg1.allPolynomsS2 = allPolyS12;
    cfg1.polynomS1Final = polyS11;
    cfg1.polynomS2Final = polyS12;
    cfg1.allSigma1sColor = new Color(255, 200, 200);
    cfg1.allSigma2sColor = new Color(200, 200, 255);
    cfg1.allPolynomsS1Color = new Color(255, 230, 230);
    cfg1.allPolynomsS2Color = new Color(230, 230, 255);
    cfg1.polynomS1FinalColor = new Color(255, 0, 0);
    cfg1.polynomS2FinalColor = new Color(0, 0, 255);
    cfg1.legend1X = 0.1;
    cfg1.legend1Y = 0.8;
    cfg1.legend1Label = "sigma11";
    cfg1.legend2X = 0.1;
    cfg1.legend2Y = 0.9;
    cfg1.legend2Label = "sigma12";

    // config plane 2
    SigmaPlotConfig cfg2 = new SigmaPlotConfig();
    cfg2.allFrames = allFrames2;
    cfg2.allSigma1s = allSigma21s;
    cfg2.allSigma2s = allSigma22s;
    cfg2.allPolynomsS1 = allPolyS21;
    cfg2.allPolynomsS2 = allPolyS22;
    cfg2.polynomS1Final = polyS21;
    cfg2.polynomS2Final = polyS22;
    cfg2.allSigma1sColor = new Color(255, 200, 255);
    cfg2.allSigma2sColor = new Color(200, 255, 255);
    cfg2.allPolynomsS1Color = new Color(255, 230, 255);
    cfg2.allPolynomsS2Color = new Color(230, 255, 255);
    cfg2.polynomS1FinalColor = new Color(255, 0, 255);
    cfg2.polynomS2FinalColor = new Color(0, 255, 255);
    cfg2.legend1X = 0.2;
    cfg2.legend1Y = 0.8;
    cfg2.legend1Label = "sigma21";
    cfg2.legend2X = 0.2;
    cfg2.legend2Y = 0.9;
    cfg2.legend2Label = "sigma22";

    // create and setup plot
    Plot plot = new Plot("Sigma", "z [nm]", "sigma [px]", null, (float[]) null);
    plot.setSize(1024, 768);
    plot.setLimits(-2*zRange, +2*zRange, 0, stageStep);
    double[] xVals = new double[(int)(2*zRange/stageStep) * 2 + 1];
    for(int val = -2*(int)zRange, i = 0; val <= +2*(int)zRange; val += stageStep, i++) {
        xVals[i] = val;
    }
    plot.draw();

    // plot
    drawSigmaPlots(plot, xVals, cfg1);
    drawSigmaPlots(plot, xVals, cfg2);

    // display
    plot.show();
}