Hi Mike,
currelntly, all slices share the same pixels. Change the code to
int sliceSize=w*h;
ImageStack target = new ImageStack(w,h);
for (int z = 0; z < al; z++){
short[] sliceArray = new short[sliceSize];
System.arraycopy(workArray, z*sliceSize, sliceArray, 0, sliceSize);
target.addSlice("slice "+(z+1), sliceArray);
}
ImagePlus target2 = new ImagePlus("Aligned", target);
target2.show();
that should work.
Best regards,
Stephan
On Fri, 2008-08-22 at 10:59 +0100, Michael Doube wrote:
> Hi all
>
> I have an elementary question, which I have been unable to solve myself:
> I have an array with nSlices*width*height elements, indexed like:
> workArray[z*width*height+y*width+x]
>
> What's the best way to output this to a new stack? I've tried this:
>
> int sliceSize=w*h;
> ImageStack target = new ImageStack(w,h);
> short[] sliceArray = new short[sliceSize];
> for (int z = 1; z < al; z++){
> System.arraycopy(workArray, z*sliceSize, sliceArray, 0, sliceSize);
> target.addSlice("slice "+z, sliceArray);
> }
> ImagePlus target2 = new ImagePlus("Aligned", target);
> target2.show();
>
> But the stack output contains only last slice repeated through the whole
> stack.
>
> Thanks
>
> Mike
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