Re: Acquiring the LUT of each Channel

Posted by Rasband, Wayne (NIH/NIMH) [E] on
URL: http://imagej.273.s1.nabble.com/Acquiring-the-LUT-of-each-Channel-tp5008167p5008218.html

On Jun 12, 2014, at 10:48 AM, Mohamed Tleis wrote:

> Dear members,
>
> I am trying to get the Lookup tables for each channel in a 2 channel tif image programmaticly. I have blue Lut in the first channel and gray in the second. Here are my trys with the output commented.
> I am never able to get the required results as "rgb[255] in the output" should be blue for the first channel and white for the second.

This code works as expected:

  ImagePlus imp = IJ.getImage();
  LUT[] luts = ((CompositeImage)imp).getLuts();
  for (int i=0; i<luts.length; i++)
      IJ.log(" "+luts[i]);

This is the output:

  rgb[0]=black, rgb[255]=blue, min=0.0000, max=230.0000
  rgb[0]=black, rgb[255]=white, min=0.0000, max=208.0000

-wayne

> Any Ideas?
>
>
> [code]
> import ij.ImagePlus;
> import ij.ImageStack;
> import ij.process.ImageProcessor;
> import ij.process.LUT;
> import loci.plugins.BF;
> import loci.plugins.in.ImporterOptions;
>
> public class testLuts {
>
>    public void getImpLuts(String path)
>    {
>        ImagePlus imp = new ImagePlus(path);
>        LUT[] luts = imp.getLuts();
>
>        for(int i =0; i < luts.length; i++)
>            System.out.println(luts[i].toString());
>
>        /* Output: Exception in thread "main" java.lang.NullPointerException
>    at testLuts.main(testLuts.java:23)
> Java Result: 1 */
>
>    }
>
>    public void getIpLut(String path)
>    {
>        ImagePlus imp = new ImagePlus(path);
>
>        ImageStack stack = imp.getImageStack();
>
>
>        for(int i =0; i < stack.getSize(); i++)
>        {
>            ImageProcessor ip = stack.getProcessor(i+1);
>            LUT l = ip.getLut();
>            System.out.println(l.toString());
>
> /* OUTPUT:             rgb[0]=black, rgb[255]=blue, min=0.0000, max=255.0000
> rgb[0]=black, rgb[255]=blue, min=0.0000, max=255.0000 */
>        }
>    }
>
>
>    public void withBioFormats(String path)
>    {
>        try{
>            ImporterOptions options = new ImporterOptions();
>            options.setId(path);
>            options.setAutoscale(true);
> options.setColorMode(ImporterOptions.COLOR_MODE_COMPOSITE);
>
>            ImagePlus[] imps = BF.openImagePlus(options);
>            LUT[] luts = imps[0].getLuts();
>            ImageStack stack = imps[0].getImageStack();
>            for(int i = 0; i < luts.length; i++)
>            {
> System.out.println(luts[i].toString());
>            }
>            for(int i = 0; i < stack.getSize(); i++)
>            {
>                ImageProcessor ip = stack.getProcessor(i+1);
>                LUT lut = ip.getLut();
>                System.out.println(lut.toString());
>            }
>        }
>       catch(Exception x){x.printStackTrace();}
>        /* OUTPUT
>        rgb[0]=black, rgb[255]=blue, min=1.0000, max=68.0000
>        rgb[0]=black, rgb[255]=blue, min=0.0000, max=213.0000
>        rgb[0]=black, rgb[255]=white, min=0.0000, max=255.0000
>        rgb[0]=black, rgb[255]=white, min=0.0000, max=255.0000*/
>    }
>
>    public static void main(String args[])
>    {
>        testLuts test = new testLuts();
>        String path = "myImage.tif";
>        test.withBioFormats(path);
>        test.getIpLut(path);
>        test.getImpLuts(path);
>    }
>
> }
> [/code]
>
> --
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