Hi Aaron,
> How might I do this so that I do not have to load all the images into
> ImageJ?
Here's a quick macro (untested):
//
inputDir1 = "/path/to/firstInputDir";
inputDir2 = "/path/to/secondInputDir";
outputDir = "/path/to/outputDir";
fileList1 = getFileList(inputDir1);
fileList2 = getFileList(inputDir2);
if (fileList1.length != fileList2.length) {
exit("Input directories must have same number of files.");
}
for (i = 0; i < fileList1.length; i++) {
file1 = fileList1[i];
file2 = fileList2[i];
open(file1);
id1 = getImageID();
open(file2);
id2 = getImageID();
imageCalculator("Subtract create 32-bit", id1, id2);
outName = File.getName(file1) + "-" + File.getName(file2);
saveAs("Tiff", outputDir + "/" + outName);
}
//
For more details, see the list of built-in macro functions:
http://imagej.nih.gov/ij/developer/macro/functions.htmlIt is also helpful to use the Macro Recorder (Plugins > Macros > Record) to
easily determine what the line of code should be corresponding to an
operation in the GUI.
Regards,
Curtis
On Tue, Mar 19, 2013 at 6:40 AM, Aaron Hendrickson <
[hidden email]>wrote:
> Hello,
>
> I have 36,000+ 16-bit greyscale images in two different folders (18,000+
> images per folder). I want to subtract all the images in folder 2 from the
> images in folder one (i.e.* img001 - img002*,* img003 - imag004*,
> ........). In addition, I want the result of each subtraction to be a
> 32-bit floating point format as not to clip any pixel values. Each 32-bit
> image created would then need to be saved in it's own directory. How might
> I do this so that I do not have to load all the images into ImageJ? I
> tried approaching this using the Batch > Virtual Stack command but was not
> able to get it to work. Any suggestions?
>
> Cheers,
> Aaron Hendrickson.
>
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