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References: <[log in to unmask]>
Content-Type: multipart/alternative;
Message-ID:  <v04205506b6b602bfab0a@[192.168.0.1]>
Date:         Sun, 18 Feb 2001 18:05:38 -0500
Reply-To:     ImageJ Interest Group <[log in to unmask]>
Sender:       ImageJ Interest Group <[log in to unmask]>
From:         Bill Christens-Barry <[log in to unmask]>
Subject:      using invertLUT() in plugin?
In-Reply-To:  <[log in to unmask]>

I've been trying to invert the LUT of 16-bit grayscale images in a
plugin without success. Can anyone give me a lead or example on how
to do this?

In particular, I have the following plugin (a variant of the
'Batch_processor.java' plugin that is on the ImageJ site):

/************ Batch_ORO.java **************/
/************ scales, smooths, and rotates ORO gels correctly **************/
import ij.plugin.*;
import java.awt.*;
import java.io.*;
import ij.*;
import ij.io.*;
import ij.process.*;
import ij.gui.*;

public class Batch_ORO implements PlugIn {

     private static String[] choices = {"Tiff","Jpeg", "Zip", "Raw"};
     private static String format = "Tiff";

     public void run(String arg) {
         OpenDialog od = new OpenDialog("Select a file in source
folder...", "");
         if (od.getFileName()==null) return;
         String dir1 = od.getDirectory();

         SaveDialog sd = new SaveDialog("Open destination folder...",
"Navigate and hit <ok>", "");
         if (sd.getFileName()==null) return;
         String dir2 = sd.getDirectory();

         convert(dir1, dir2, format);
     }

     public void convert(String dir1, String dir2, String format) {
         IJ.write("");
         IJ.write("Converting to "+format);
         IJ.write("dir1: "+dir1);
         IJ.write("dir2: "+dir2);
         String[] list = new File(dir1).list();
         if (list==null) return;
         for (int i=0; i<list.length; i++) {
             IJ.write((i+1)+": "+list[i]);
             IJ.showStatus(i+"/"+list.length);
             File f = new File(dir1+list[i]);
             if (!f.isDirectory()) {
                 ImagePlus img = new Opener().openImage(dir1, list[i]);
                 if (img!=null) {
                     img = process(img);
                     if (img!=null)
                         save(img, dir2, format);
                 }
             }
         }
         IJ.showProgress(1.0);
         IJ.showStatus("");
     }

     /** This is the place to add code to process each image. The image
         is not written if this method returns null. */
     v {
           double xscale = 0.5392;
           double yscale = 1.4825;
           int width = img.getWidth();
           int height = img.getHeight();
           ImageProcessor ip = img.getProcessor();
           ip.setInterpolate(true);
           ip = ip.resize((int)(width*xscale), (int)(height*yscale));
           img.setProcessor(null, ip);
           ip.rotate(-90);
           xscale = 0.6400;
           yscale = 0.5600;
           width = img.getWidth();
           height = img.getHeight();
           ip.setInterpolate(true);
           ip = ip.resize((int)(width*xscale), (int)(height*yscale));
           img.setProcessor(null, ip);
           ip.smooth();
           ip.smooth();
           return img;
     }

     public void save(ImagePlus img, String dir, String format) {
         String name = img.getTitle();
         int type = img.getType();
         int dotIndex = name.lastIndexOf(".");
         if (dotIndex>=0)
             name = name.substring(0, dotIndex);
         String path = dir + name;
         new FileSaver(img).saveAsTiff(path+"jo.tif");
     }

     /** Run Batch_ORO using a command something like
             "java -cp ij.jar;. Batch_ORO c:\dir1\ c:\dir2\"
     */
     public static void main(String args[]) {
         if (args.length<2)
             IJ.write("usage: java Batch_ORO srcdir dstdir");
         else
             new Batch_ORO ().convert(args[0], args[1], "Jpeg");
     }

}

I'd like to do the LUT inversion, using the invertLUT() method. I've
tried using a command

   ip.inverLUT();

after the smoothing operations in the public ImagePlus
process(ImagePlus img) method (where other image manipulations are
done), but I get an error to the saying that

   /Muchachos/NIH Image/ImageJ
1.20s/plugins/Processing/Batch_ORO.java:71: Method invertLUT() not
found in class ij.process.ImageProcessor.
           ip.invertLUT();

If I open the source in CodeWarrior, I see the method in ij.process.
What am I failing to understand here?

Thanks,

Bill Christens-Barry

...........................................................
.........*..................................*...........
......*......Bill Christens-Barry.....*......
.....*............................................*.....
......*[log in to unmask]*.......
.........*..................................*...........
...........................................................

[text/enriched]

I've been trying to invert the LUT of 16-bit grayscale images in a
plugin without success. Can anyone give me a lead or example on how to
do this?


In particular, I have the following plugin (a variant of the
'Batch_processor.java' plugin that is on the ImageJ site):


<fontfamily><param>Geneva</param>/************ Batch_ORO.java
**************/

/************ scales, smooths, and rotates ORO gels correctly
**************/

import ij.plugin.*;

import java.awt.*;

import java.io.*;

import ij.*;

import ij.io.*;

import ij.process.*;

import ij.gui.*;


public class Batch_ORO implements PlugIn {


    private static String[] choices = {"Tiff","Jpeg", "Zip", "Raw"};

    private static String format = "Tiff";


    public void run(String arg) {

        OpenDialog od = new OpenDialog("Select a file in source
folder...", "");

        if (od.getFileName()==null) return;

        String dir1 = od.getDirectory();


        SaveDialog sd = new SaveDialog("Open destination folder...",
"Navigate and hit <<ok>", "");

        if (sd.getFileName()==null) return;

        String dir2 = sd.getDirectory();


        convert(dir1, dir2, format);

    }


    public void convert(String dir1, String dir2, String format) {

        IJ.write("");

        IJ.write("Converting to "+format);

        IJ.write("dir1: "+dir1);

        IJ.write("dir2: "+dir2);

        String[] list = new File(dir1).list();

        if (list==null) return;

        for (int i=0; i<<list.length; i++) {

            IJ.write((i+1)+": "+list[i]);

            IJ.showStatus(i+"/"+list.length);

            File f = new File(dir1+list[i]);

            if (!f.isDirectory()) {

                ImagePlus img = new Opener().openImage(dir1, list[i]);

                if (img!=null) {

                    img = process(img);

                    if (img!=null)

                        save(img, dir2, format);

                }

            }

        }

        IJ.showProgress(1.0);

        IJ.showStatus("");

    }


    /** This is the place to add code to process each image. The image

        is not written if this method returns null. */

    v {

          double xscale = 0.5392;

          double yscale = 1.4825;

          int width = img.getWidth();

          int height = img.getHeight();

          ImageProcessor ip = img.getProcessor();

          ip.setInterpolate(true);

          ip = ip.resize((int)(width*xscale), (int)(height*yscale));

          img.setProcessor(null, ip);

          ip.rotate(-90);

          xscale = 0.6400;

          yscale = 0.5600;

          width = img.getWidth();

          height = img.getHeight();

          ip.setInterpolate(true);

          ip = ip.resize((int)(width*xscale), (int)(height*yscale));

          img.setProcessor(null, ip);

          ip.smooth();

          ip.smooth();

          return img;

    }


    public void save(ImagePlus img, String dir, String format) {

        String name = img.getTitle();

        int type = img.getType();

        int dotIndex = name.lastIndexOf(".");

        if (dotIndex>=0)

            name = name.substring(0, dotIndex);

        String path = dir + name;

        new FileSaver(img).saveAsTiff(path+"jo.tif");

    }


    /** Run Batch_ORO using a command something like

            "java -cp ij.jar;. Batch_ORO c:\dir1\ c:\dir2\"

    */

    public static void main(String args[]) {

        if (args.length<<2)

            IJ.write("usage: java Batch_ORO srcdir dstdir");

        else

            new Batch_ORO ().convert(args[0], args[1], "Jpeg");

    }


}


</fontfamily>I'd like to do the LUT inversion, using the invertLUT()
method. I've tried using a command


  ip.inverLUT();


after the smoothing operations in the
<fontfamily><param>Geneva</param>public ImagePlus process(ImagePlus
img)</fontfamily> method (where other image manipulations are done),
but I get an error to the saying that


  <fontfamily><param>Geneva</param>/Muchachos/NIH Image/ImageJ
1.20s/plugins/Processing/Batch_ORO.java:71: Method invertLUT() not
found in class ij.process.ImageProcessor.

          ip.invertLUT();


If I open the source in CodeWarrior, I see the method in ij.process.
What am I failing to understand here?


Thanks,


Bill Christens-Barry
</fontfamily>

...........................................................

.........*..................................*...........

......*......Bill Christens-Barry.....*......

.....*............................................*.....

......*[log in to unmask]*.......

.........*..................................*...........

...........................................................

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