need to open .raw file using imajeJ libraries

[ashishdonvir]

hello all

in my application i required to open .raw file as image in java i tried a lot  to do this but dint get success.
now can any any tell me how to use imajeJ's .raw  opener class in my application.
one think is that here i am not suppose to open file chooser or any imajeJ window. i just have my .raw file path in some string variable and i want image in buffered image variable using imajeJ library.  

many thanks any advance

[Rasband, Wayne (NIH/NIMH) [E]]

On May 24, 2012, at 7:02 AM, ashishdonvir wrote:

> hello all
>
> in my application i required to open .raw file as image in java i tried a
> lot  to do this but dint get success.
> now can any any tell me how to use imajeJ's .raw  opener class in my
> application.
> one think is that here i am not suppose to open file chooser or any imajeJ
> window. i just have my .raw file path in some string variable and i want
> image in buffered image variable using imajeJ library.

Create a FileInfo object that describes the raw file then use the FileOpener class to open it. Here is a JavaScript example:

  path = "/Users/wayne/test.raw";
  fi = new FileInfo();
  fi.fileName = path;
  fi.fileType = FileInfo.GRAY8;
  fi.width = 512;
  fi.height = 512;
  fo = new FileOpener(fi);
  imp = fo.open(false);
  if (imp!=null) {
     bi = imp.getBufferedImage();
     //new ImagePlus(path, bi).show()
  }

-wayne

[ashishdonvir]

hello wayne
thanks a lot it worked for me. now i have little issue. My i need to to set Little-endian byte order as true.
so how to set this?
my image gray scale image of size 1050 X 1580 and  16-bit Sined.
please reply me soon.
thanks in advance

[ashishdonvir]

Why get as buffered image gave me 8 bit image?
 i have my raw data 16 bit when i stored the image using image plus it store as 16 bit the image is now what i want it turns black image and when save as buffered image it looks nice but image got of 8-bit.
i use imajej file save r for both the image save i told above

[Michael Schmid]

Hi Ashish,

the BufferedImage is what Java uses to display the image. It has a maximum bit depth of 8 bits (grayscale) or 8 bits per color (RGB); Java does not support higher bit depth.

For supported types, see the "Field summary" in
  http://docs.oracle.com/javase/6/docs/api/java/awt/image/BufferedImage.html

Thus, save the image as 16-bit image, and use auto adjust Brightness&Contrast after loading it.

Michael
________________________________________________________________
On May 27, 2012, at 17:43, ashishdonvir wrote:

> Why get as buffered image gave me 8 bit image?
> i have my raw data 16 bit when i stored the image using image plus it store
> as 16 bit the image is now what i want it turns black image and when save as
> buffered image it looks nice but image got of 8-bit.
> i use imajej file save r for both the image save i told above

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Rasband, Wayne (NIH/NIMH) [E]]

On May 27, 2012, at 11:43 AM, ashishdonvir wrote:

> Why get as buffered image gave me 8 bit image?
> i have my raw data 16 bit when i stored the image using image plus it store
> as 16 bit the image is now what i want it turns black image and when save as
> buffered image it looks nice but image got of 8-bit.
> i use imajej file save r for both the image save i told above

Use the ShortProcessor.get16BitBufferedImage() method to get a 16-bit BufferedImage. Here is a JavaScript example:

  path = "/Users/wayne/test.raw";
  fi = new FileInfo();
  fi.fileName = path;
  fi.fileType = FileInfo.GRAY16_UNSIGNED;
  fi.width = 1050;
  fi.height = 1580;
  fi.intelByteOrder = true;
  fo = new FileOpener(fi);
  imp = fo.open(false);
  if (imp!=null) {
     ip = imp.getProcessor();
     bi = ip.get16BitBufferedImage();
     //new ImagePlus(path, bi).show()
  }

In a plugin, this line

   ip = imp.getProcessor();

will need to be changed to

   ShortProcessor ip = (ShortProcessor)imp.getProcessor();

-wayne
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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[ashishdonvir]

so after applying some imajeJ algorithm , how should i get 16 bit image from imagePlus as i have to apply some of my own algorithm to this 16 bit image?

[Robert Lockwood]

I  have "raw" images that are 16 bit gray scale (created by  C/C++) with
pixels as USHORT.  I have coded a java application that displays them and
at no time do I explicitly convert to 8 bit.

I just used ImageJ to read one of my files and saved it as a TIFF.  Since
the source file and TIFF file are about the same size I know the TIFF is
not 8 bit.

I've implemented AHF reader as well.

I will supply some code if it's any use to you.

Nate

On Wed, Jun 6, 2012 at 2:41 AM, ashishdonvir <[hidden email]>wrote:

> so after applying some imajeJ algorithm , how should i get 16 bit image
> from
> imagePlus as i have to apply some of my own algorithm to this 16 bit image?
>
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So far, so good.

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[ashishdonvir]

Thank you very much it worked