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
(kvlQuanti
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
r
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] Ques
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
Dear Zoe,
have you checked whether all directories within your subject directory
correspond to subjects which have been reconed with the -hippo-subfields
flag?
Cheers,
/Eugenio
On 06/24/2013 04:00 PM, Yang, Zoe wrote:
Hi all,
I am getting error messages while running
kvlQuantifyHippocampal
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, an
