Re: ImageJ will not keep images open in batch mode

Posted by Ryan McCool on Jul 21, 2017; 8:29pm
URL: http://imagej.273.s1.nabble.com/ImageJ-will-not-keep-images-open-in-batch-mode-tp5019103p5019108.html

It seems the answer was actually as simple as adding

setBatchMode("True");

before the code. Now the code is:

title = "Select Images";
msg = "Select Merged RFP & GFP Photos";
waitForUser(title, msg);

Merged_image_directory = getDirectory("Choose Source Directory ");
              Merged_images = getFileList(Merged_image_directory);


setBatchMode("True");
for (i=0; i<Merged_images.length; i++){

open(Merged_image_directory+Merged_images[i]);
  run("Cell Counter");
   title = "Cell Counter";
    msg = "Count Cells, click result, record to exterior source, then close this dialogue box";
    waitForUser(title, msg);
}

Hopefully this is useful to someone else who is just starting out using ImageJ.

Sincerely,
Ryan McCool