Hi Jürgen,

mainly you are right. As there is no change in the first processing steps between the cross sectional and the longitudinal stream, it is sufficient, to simply copy that data from the cross sectional directories, instead of rerunning it. The -long stream starts being different in the skullstrip step (where additionally information from the base template is used).

For a detailed description of each step see:

http://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalProcessing

Cheers, Martin

On Tue, 2009-11-24 at 15:42 +0100, Jürgen Hänggi wrote:

Dear FS experts

Am I right that the input for step 3 in recon-all -long are the already cross-sectionally processed images from step 1 and not the raw images that I used to create these cross-sectionally images?

Thanks for clarification Regards Jürgen

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Jürgen Hänggi, Ph.D. Division Neuropsychology Institute of Psychology University of Zurich Binzmuehlestrasse 14, PO Box 25 8050 Zurich, Switzerland 0041 44 635 73 97 (phone office) 0041 76 445 86 84 (phone mobile) 0041 44 635 74 09 (fax office) BIN 4.D.04 (office room number) j.haenggi[at]psychologie.uzh.ch (email) http://www.psychologie.uzh.ch/neuropsy/ (website) http://www.juergenhaenggi.ch (private website)

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