zPositionProjection

Project a defined Z-slice of a 3D stack into a 2D image.

Which Z-slice is defined as the z_position image, which represents an altitude map.

Availability: Available in Fiji by activating the update sites clij and clij2. This function is part of clij2_-2.5.0.1.jar.

Usage in ImageJ macro

Ext.CLIJ2_zPositionProjection(Image source_stack, Image z_position, Image destination);

Usage in object oriented programming languages

Java

// init CLIJ and GPU
import net.haesleinhuepf.clij2.CLIJ2;
import net.haesleinhuepf.clij.clearcl.ClearCLBuffer;
CLIJ2 clij2 = CLIJ2.getInstance();

// get input parameters
ClearCLBuffer source_stack = clij2.push(source_stackImagePlus);
ClearCLBuffer z_position = clij2.push(z_positionImagePlus);
destination = clij2.create(source_stack);

// Execute operation on GPU
clij2.zPositionProjection(source_stack, z_position, destination);

// show result
destinationImagePlus = clij2.pull(destination);
destinationImagePlus.show();

// cleanup memory on GPU
clij2.release(source_stack);
clij2.release(z_position);
clij2.release(destination);

Matlab

% init CLIJ and GPU
clij2 = init_clatlab();

% get input parameters
source_stack = clij2.pushMat(source_stack_matrix);
z_position = clij2.pushMat(z_position_matrix);
destination = clij2.create(source_stack);

% Execute operation on GPU
clij2.zPositionProjection(source_stack, z_position, destination);

% show result
destination = clij2.pullMat(destination)

% cleanup memory on GPU
clij2.release(source_stack);
clij2.release(z_position);
clij2.release(destination);

Icy JavaScript

// init CLIJ and GPU
importClass(net.haesleinhuepf.clicy.CLICY);
importClass(Packages.icy.main.Icy);

clij2 = CLICY.getInstance();

// get input parameters
source_stack_sequence = getSequence();
source_stack = clij2.pushSequence(source_stack_sequence);
z_position_sequence = getSequence();
z_position = clij2.pushSequence(z_position_sequence);
destination = clij2.create(source_stack);

// Execute operation on GPU
clij2.zPositionProjection(source_stack, z_position, destination);

// show result
destination_sequence = clij2.pullSequence(destination)
Icy.addSequence(destination_sequence);
// cleanup memory on GPU
clij2.release(source_stack);
clij2.release(z_position);
clij2.release(destination);

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