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Hi, This doesn't happen to me when I run it with an input mask. What does the output txt file look like? And what is the output of fslhd on your input file? All the best, Mark On 17 Oct 2014, at 08:04, Salil Soman <[log in to unmask]<mailto:[log in to unmask]>> wrote: Dear List Members, I have images that are masks reflecting traced lesions. I am running : cluster -i <INPUT IMAGE> (after smoothing an d binning) -t 1 > clusterfile.txt The Cog x, y and z orientations are missing for all these files. Any suggestions on what I am doing wrong would be greatly appreciated. Best wishes, Salil Soman, MD, MS