PM
To: Yang, Zoe
Cc: 'Freesurfer@nmr.mgh.harvard.edu'
Subject: Re: [Freesurfer] Question about running
kvlQuantifyHippocampalSubfieldSegmentations.sh
Dear Zoe,
have you checked whether all directories within your subject directory
correspond to subjects which have been reconed with the -hippo
reconed with the --hippo-subfields flag. Both
of them have 20 output files.
Cheers,
Zoe
*From:*Juan Eugenio Iglesias [mailto:igles...@nmr.mgh.harvard.edu]
*Sent:* Monday, June 24, 2013 5:03 PM
*To:* Yang, Zoe
*Cc:* 'Freesurfer@nmr.mgh.harvard.edu'
*Subject:* Re: [Freesurfer] Question about
Dear, Zoe
Usually after Freesurfer fresh install you will get a SUBJECTS_DIR with
several directories, including Bert. The script you used will scan all
directories under SUBJECTS_DIR and if it finds any directory without the
posterior*.mgz files it will fail. You can check if this is the problem
Hi again,
Zoe, Marcos is right about the fact that the script fails if the
posterior*.mgz are not found in any
1- Set your $SUBJECTS_DIR variable as another another path and move
your subjects directories (and only these directories to this place)
and run the same script you tried
Hi all,
I am getting error messages while running
kvlQuantifyHippocampalSubfieldSegmentations.sh, similar to the error mentioned
in an earlier email
(http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg24430.html). We
did use the -hippo-subfields flag for all of our subjects first,
