|
|
Hi all,
I am having a problem subtracting a background image from my virtual stack
that will hopefully be fairly easy to fix. I have a code that works; the
abbreviated version of the code is this:
backgroundImage="filepath";
open(backgroundImage);
dumBI=getImageID();
filename = dir1 + list[1];
run("Image Sequence...", "open=[filename] starting=1 increment=1 scale=100
file=.tif or=[] sort use");
image=getTitle();
imageCalculator("Subtract create 32-bit stack", image, dumBI);
This works, however, I cannot run it when I increased the stack size (~10k
images) due to memory restrictions. Does anyone know of a way to make the
above command work (imageCalculator("Subtract create 32-bit stack", image,
dumBI);) without increasing the memory over 2GB? I am currently running my
whole script in batch mode through the terminal.
Or, does anyone know what would be used for "image" in the above command if
I wanted to loop through the stack slices? Ie,
filename = dir1 + list[1];
run("Image Sequence...", "open=[filename] starting=1 increment=1 scale=100
file=.tif or=[] sort use");
for (n=1; n<=nSlices; n++) {
setSlice(n);
slice= WHAT NEEDS TO GO HERE? (how to I get slice ID)
imageCalculator("Subtract 32-bit",slice, dumBI);
Thanks in advance for your help!
|
Locked
