Java Code Examples for ij.measure.Calibration#copy()

The following examples show how to use ij.measure.Calibration#copy() . You can vote up the ones you like or vote down the ones you don't like, and go to the original project or source file by following the links above each example. You may check out the related API usage on the sidebar.
Example 1
Source File: Turn.java    From 3Dscript with BSD 2-Clause "Simplified" License 5 votes vote down vote up 
public static ImagePlus toZY(ImagePlus image) {
	int w = image.getWidth();
	int h = image.getHeight();
	int d = image.getNSlices();

	ImageProcessor[] slices = new ImageProcessor[d];
	for(int z = 0; z < d; z++) {
		int idx = image.getStackIndex(image.getC(), z + 1, image.getT());
		slices[z] = image.getStack().getProcessor(idx);
	}

	// x = z, y = y, z = -x
	int neww = d, newh = h, newd = w;
	ImageStack stack = new ImageStack(neww, newh);
	for(int z = 0; z < newd; z++) {
		int oldX = newd - z - 1;
		ImageProcessor ip = image.getProcessor().createProcessor(neww, newh);
		for(int y = 0; y < newh; y++) {
			int oldY = y;
			for(int x = 0; x < neww; x++) {
				int oldZ = x;
				ip.setf(x, y, slices[oldZ].getf(oldX, oldY));
			}
		}
		stack.addSlice(ip);
	}
	ImagePlus ret = new ImagePlus(image.getTitle(), stack);
	Calibration cal0 = image.getCalibration();
	Calibration cal1 = cal0.copy();
	cal1.pixelWidth  = cal0.pixelDepth;
	cal1.pixelHeight = cal0.pixelHeight;
	cal1.pixelDepth  = cal0.pixelWidth;
	ret.setCalibration(cal1);
	return ret;
}
Example 2
Source File: Turn.java    From 3Dscript with BSD 2-Clause "Simplified" License 5 votes vote down vote up 
public static ImagePlus toXZ(ImagePlus image) {
	int w = image.getWidth();
	int h = image.getHeight();
	int d = image.getNSlices();

	ImageProcessor[] slices = new ImageProcessor[d];
	for(int z = 0; z < d; z++) {
		int idx = image.getStackIndex(image.getC(), z + 1, image.getT());
		slices[z] = image.getStack().getProcessor(idx);
	}

	// x = x, y = z, z = -y
	int neww = w, newh = d, newd = h;
	ImageStack stack = new ImageStack(neww, newh);
	for(int z = 0; z < newd; z++) {
		int oldY = newd - z - 1;
		ImageProcessor ip = image.getProcessor().createProcessor(neww, newh);
		for(int y = 0; y < newh; y++) {
			int oldZ = y;
			for(int x = 0; x < neww; x++) {
				int oldX = x;
				ip.setf(x, y, slices[oldZ].getf(oldX, oldY));
			}
		}
		stack.addSlice(ip);
	}
	ImagePlus ret = new ImagePlus(image.getTitle(), stack);
	Calibration cal0 = image.getCalibration();
	Calibration cal1 = cal0.copy();
	cal1.pixelWidth  = cal0.pixelWidth;
	cal1.pixelHeight = cal0.pixelDepth;
	cal1.pixelDepth  = cal0.pixelHeight;
	ret.setCalibration(cal1);
	return ret;
}
Example 3
Source File: Stitch_Image_Collection.java    From Stitching with GNU General Public License v2.0 5 votes vote down vote up 
protected static Calibration updateCalibration( Calibration cal, Calibration newOne )
{
	if ( cal == null )
		cal = newOne.copy();
	else
		if ( !cal.equals(newOne) )
		{
			Log.error( "Calibration mismatch: " );
			Log.error( "  First   image: " + cal.toString() );
			Log.error( "  Current image: " + newOne.toString() );						
		}
	
	return cal;
}