scale3D

Scales an image with a given factor.

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

scale3D is often followed by

equalizeMeanIntensitiesOfSlices (1)

Usage in ImageJ macro

Ext.CLIJ2_scale3D(Image source, Image destination, Number scaling_factor_x, Number scaling_factor_y, Number scaling_factor_z,  Boolean scale_to_center);

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 = clij2.push(sourceImagePlus);
destination = clij2.create(source);
float scaling_factor_x = 1.0;
float scaling_factor_y = 2.0;
float scaling_factor_z = 3.0;
boolean scale_to_center = true;

// Execute operation on GPU
clij2.scale3D(source, destination, scaling_factor_x, scaling_factor_y, scaling_factor_z, scale_to_center);

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

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

Matlab

% init CLIJ and GPU
clij2 = init_clatlab();

% get input parameters
source = clij2.pushMat(source_matrix);
destination = clij2.create(source);
scaling_factor_x = 1.0;
scaling_factor_y = 2.0;
scaling_factor_z = 3.0;
scale_to_center = true;

% Execute operation on GPU
clij2.scale3D(source, destination, scaling_factor_x, scaling_factor_y, scaling_factor_z, scale_to_center);

% show result
destination = clij2.pullMat(destination)

% cleanup memory on GPU
clij2.release(source);
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_sequence = getSequence();
source = clij2.pushSequence(source_sequence);
destination = clij2.create(source);
scaling_factor_x = 1.0;
scaling_factor_y = 2.0;
scaling_factor_z = 3.0;
scale_to_center = true;

// Execute operation on GPU
clij2.scale3D(source, destination, scaling_factor_x, scaling_factor_y, scaling_factor_z, scale_to_center);

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

clEsperanto Python (experimental)

import pyclesperanto_prototype as cle

cle.scale(source, destination, scaling_factor_x, scaling_factor_y, scaling_factor_z, scale_to_center)

Example notebooks

image_segmentation_3d
Segmentation_3D.ipynb
affine_transforms.ipynb

Example scripts

image_segmentation_3d.ijm

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