Hi Anastasia,
> Hi Gwen,
>
> Thank you for your reply.
> I re-run the analysis twice and I am consistently missing
> 15 volumes from the template_4D file. I have 13 patients and
> 13 healthy volunteers, so I should have 52 volumes in my
> template_4D file. Would there be any error logs that would
> indicate why not all xfliped images are included in the
> template? I checked all of the logs in the struc directory
> and did not see any error messages. Thank you for your
> help.
Hmmm, the only thing I can think of right now is that you have a template_list file with less than all your 13+13 subjects, but this would still not explain why you have an *odd* number of images missing...
What do you get when you do an: ls *flipped*nii.gz in your struc directory?
Cheers,
Gwenaelle
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Gwenaëlle Douaud, PhD
FMRIB Centre, University of Oxford
John Radcliffe Hospital, Headington OX3 9DU Oxford UK
Tel: +44 (0) 1865 222 523 Fax: +44 (0) 1865 222 717
www.fmrib.ox.ac.uk/~douaud
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