Thank you for your email. Just to follow up, the rh and lh hippocampal hippoSfVolumes-T1.v10.txt files are present, but for a large number of cases, only the lh hippoSfVolumes-T1.long.v10.txt files are present. I reran the exact same recon-all -long command for all the cases, and I reran them after your suggestion, but there is no change in the number of missing rh.hippoSfVolumes-T1.long.v10.txt files. The log file for the longitudinal processing for recon-all says the process completed with no errors.

Is there anything else I should check?

Thanks!

On Fri, Apr 14, 2017 at 3:54 AM Alan Francis <alandarkenergy@gmail.com> wrote:
Hi Salil:

It could be that the HSF script may have `errored out' mid way through the analysis. If you go through the recon processing steps which are one of the output files, you will see exactly where the error occurred. Just reprocess that brain and see if that happens again.

Hope this helps,

best,

Alan



On Thu, Apr 13, 2017 at 4:49 PM, Salil Soman <sal@jhu.edu> wrote:
Hi,

I have run a number of cases through the FS6 hippocampal longitudinal processing steps listed at https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalHippocampalSubfields and https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalProcessing

It seems that all steps completed, but when it came time to collect the results, I find I have many more lh.hippoSfVolumes-T1.long.v10.txt (67) than rh.hippoSfVolumes-T1.long.v10.txt files (25). Any suggestions on what I may be doing incorrectly?

Thanks!

Salil Soman

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Alan N. Francis PhD
Regional Sales Manager/ Application specialist
Nordic Neurolab
Boston.


Previously:
Instructor - Imaging Neuroscience
Brain Imaging Center
McLean Hospital
Harvard Medical School
115 Mill Street, Belmont, MA 02478
alanf@bwh.harvard.edu
                                                                                                          
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