Homec4science
Diffusion DEVILS plugin (branch_devFasterProcessing) Browse

ijp-DEVILS/src/main/java/com/mycompany/imagej/Process_Pixels.java
1a3c0d96547cbranch_devFasterProcess…

Last Change
Raw File

Process_Pixels.java
View Options

/*
* To the extent possible under law, the ImageJ developers have waived
* all copyright and related or neighboring rights to this tutorial code.
*
* See the CC0 1.0 Universal license for details:
* http://creativecommons.org/publicdomain/zero/1.0/
*/
package com.mycompany.imagej;
import ij.IJ;
import ij.ImageJ;
import ij.ImagePlus;
import ij.gui.GenericDialog;
import ij.plugin.filter.PlugInFilter;
import ij.process.ImageProcessor;
/**
* A template for processing each pixel of either
* GRAY8, GRAY16, GRAY32 or COLOR_RGB images.
*
* @author Johannes Schindelin
*/
public class Process_Pixels implements PlugInFilter {
protected ImagePlus image;
// image property members
private int width;
private int height;
// plugin parameters
public double value;
public String name;
@Override
public int setup(String arg, ImagePlus imp) {
if (arg.equals("about")) {
showAbout();
return DONE;
}
image = imp;
return DOES_8G | DOES_16 | DOES_32 | DOES_RGB;
}
@Override
public void run(ImageProcessor ip) {
// get width and height
width = ip.getWidth();
height = ip.getHeight();
if (showDialog()) {
process(ip);
image.updateAndDraw();
}
}
private boolean showDialog() {
GenericDialog gd = new GenericDialog("Process pixels");
// default value is 0.00, 2 digits right of the decimal point
gd.addNumericField("value", 0.00, 2);
gd.addStringField("name", "John");
gd.showDialog();
if (gd.wasCanceled())
return false;
// get entered values
value = gd.getNextNumber();
name = gd.getNextString();
return true;
}
/**
* Process an image.
* <p>
* Please provide this method even if {@link ij.plugin.filter.PlugInFilter} does require it;
* the method {@link ij.plugin.filter.PlugInFilter#run(ij.process.ImageProcessor)} can only
* handle 2-dimensional data.
* </p>
* <p>
* If your plugin does not change the pixels in-place, make this method return the results and
* change the {@link #setup(java.lang.String, ij.ImagePlus)} method to return also the
* <i>DOES_NOTHING</i> flag.
* </p>
*
* @param image the image (possible multi-dimensional)
*/
public void process(ImagePlus image) {
// slice numbers start with 1 for historical reasons
for (int i = 1; i <= image.getStackSize(); i++)
process(image.getStack().getProcessor(i));
}
// Select processing method depending on image type
public void process(ImageProcessor ip) {
int type = image.getType();
if (type == ImagePlus.GRAY8)
process( (byte[]) ip.getPixels() );
else if (type == ImagePlus.GRAY16)
process( (short[]) ip.getPixels() );
else if (type == ImagePlus.GRAY32)
process( (float[]) ip.getPixels() );
else if (type == ImagePlus.COLOR_RGB)
process( (int[]) ip.getPixels() );
else {
throw new RuntimeException("not supported");
}
}
// processing of GRAY8 images
public void process(byte[] pixels) {
for (int y=0; y < height; y++) {
for (int x=0; x < width; x++) {
// process each pixel of the line
// example: add 'number' to each pixel
pixels[x + y * width] += (byte)value;
}
}
}
// processing of GRAY16 images
public void process(short[] pixels) {
for (int y=0; y < height; y++) {
for (int x=0; x < width; x++) {
// process each pixel of the line
// example: add 'number' to each pixel
pixels[x + y * width] += (short)value;
}
}
}
// processing of GRAY32 images
public void process(float[] pixels) {
for (int y=0; y < height; y++) {
for (int x=0; x < width; x++) {
// process each pixel of the line
// example: add 'number' to each pixel
pixels[x + y * width] += (float)value;
}
}
}
// processing of COLOR_RGB images
public void process(int[] pixels) {
for (int y=0; y < height; y++) {
for (int x=0; x < width; x++) {
// process each pixel of the line
// example: add 'number' to each pixel
pixels[x + y * width] += (int)value;
}
}
}
public void showAbout() {
IJ.showMessage("ProcessPixels",
"a template for processing each pixel of an image"
);
}
/**
* Main method for debugging.
*
* For debugging, it is convenient to have a method that starts ImageJ, loads
* an image and calls the plugin, e.g. after setting breakpoints.
*
* @param args unused
*/
public static void main(String[] args) {
// set the plugins.dir property to make the plugin appear in the Plugins menu
Class<?> clazz = Process_Pixels.class;
String url = clazz.getResource("/" + clazz.getName().replace('.', '/') + ".class").toString();
String pluginsDir = url.substring("file:".length(), url.length() - clazz.getName().length() - ".class".length());
System.setProperty("plugins.dir", pluginsDir);
// start ImageJ
new ImageJ();
// open the Clown sample
ImagePlus image = IJ.openImage("http://imagej.net/images/clown.jpg");
image.show();
// run the plugin
IJ.runPlugIn(clazz.getName(), "");
}
}
c4science · Help