Re: Opening a single image from a tiff stack

Posted by Mike Downey on Jan 21, 2011; 10:08pm
URL: http://imagej.273.s1.nabble.com/Opening-a-single-image-from-a-tiff-stack-tp3685932p3685934.html

On 21/01/2011 15:29, Rasband, Wayne (NIH/NIMH) [E] wrote:

> On Jan 21, 2011, at 8:51 AM, Mike Downey wrote:
>
>> Hi,
>>
>> I am trying to write a plugin which needs to read in single frames from
>> a TIFF stack. It appears that a virtual stack is the way to go so I tried:
>>
>> TiffDecoder td = new TiffDecoder(directory, filename);
>> FileInfo[] fi = td.getTiffInfo();
>> FileInfoVirtualStack vs = new FileInfoVirtualStack(fi[0]);
>> ImageProcessor ip = vs.getProcessor(frame);
>>
>> This works but has the unwanted side effect of displaying the stack too.
>> I had a look at the source code and the open() method in
>> FileInfoVirtualStack ends with imp2.show();
>> Is there another way of obtaining single images from a stack (without
>> having to load in the entire stack or display anything unwanted on
>> screen)? In the meantime I have subclassed FileInfoVirtualStack and
>> replaced the open() method with an identical copy, apart from the
>> unwanted imp2.show(); command.
> The FileInfoVirtualStack class in the ImageJ 1.44o4 daily build has a FileInfoVirtualStack(FileInfo, false) constructor that opens a TIFF virtual stack without displaying it. Here is a JavaScript example that opens images 10-20 of a TIFF stack.
>
>   td = new TiffDecoder(directory, fllename);
>   fi = td.getTiffInfo();
>   vs = new FileInfoVirtualStack(fi[0], false);
>   stack = new ImageStack(vs.getWidth(), vs.getHeight());
>   for (i=10; i<=20; i++)
>       stack.addSlice(vs.getSliceLabel(i), vs.getProcessor(i));
>   new ImagePlus("stack(10-20)", stack).show();
>
> -wayne

Cheers Wayne, I'll give that a try.

Mike.