Posted by
Sebastian Voigtländer on
Jan 24, 2017; 8:09pm
URL: http://imagej.273.s1.nabble.com/question-macro-for-automatic-image-stack-summing-tp5017938.html
Dear all,
I try to write a simple macro to help me with image analysis for my thesis.
It should:
1. open .tif image stacks from an input folder
2. execute run("Z Project...", "projection=[Sum Slices]")
3. save the files in an output folder
my macro (so far):
function sum_stacks(input, output, filename) {
run("Bio-Formats Windowless Importer", "open=input + filename");
run("Z Project...", "projection=[Sum Slices]");
run("Save", "save=[output+filename]");
run("Close");
};
input = "*specified input folder with stacks of .tif images*"
output = "*specified empty output folder*"
list = getFileList(input);
for (k = 0; k < list.length; k++) {
sum_stacks(input, output, list[k]);
};
When I run it I get the error message:
Sorry, there was an I/O problem during import.
Since I have no idea what's wrong, I would be very grateful for any help!
Cheers,
Sebastian
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