fsaverage should not be empty. Maybe it is a link to an empty folder? It
should point to $FREESURFER/subjects/fsaverage. You should not mix the
streams in this way (insert Ghost Busters joke here)
On 2/16/2022 4:33 PM, Willett, Andrew Sunday wrote:
Dr. Greve,
I don't believe that file exists--fsaverage folder was empty. We
re-ran these files through v7.2.1 while seeking solutions. Is it going
to produce tenable findings if we run Freesurfer v7.2.1
cross-sectional data through Freesurfer's v6.0's longitudinal stream?
Best,
Andrew
------------------------------------------------------------------------
*From:* Greve, Douglas N.,Ph.D. <dgr...@mgh.harvard.edu>
*Sent:* Wednesday, February 16, 2022 10:37 AM
*To:* Willett, Andrew Sunday <awill...@bwh.harvard.edu>; Freesurfer
support list <freesurfer@nmr.mgh.harvard.edu>
*Subject:* Re: [Freesurfer] Longitudinal Stream Error
Does that file exist?
ps. Please remember to post to the list. Thanks!
On 2/15/2022 5:06 PM, Willett, Andrew Sunday wrote:
Dr. Greve,
I hope this email finds you well. Thank you for your response to my
listed question on Freesurfer’s mailing list on Sunday! I wanted to
reach out to followup re: longitudinal stream error.
The main error I receive with the base code is as follows:
SUBJECTS_DIR /PHShome/asw39/subjects
FREESURFER_HOME /PHShome/asw39/freesurfer
Loading source label.
Invalid argument
ERROR reading /PHShome/asw39/subjects/fsaverage/label/lh.BA1_exvivo.label
Linux rgs10.research.partners.org 2.6.32-696.28.1.el6.x86_64 #1 SMP
Thu Apr 26 04:27:41 EDT 2018 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s MSA12 exited with ERRORS at Tue Nov 30 20:43:37 EST 2021
We got this error after we used Freesurfer v6.0 to process the data
cross-sectionally and then run the base template. Do you know whether
it is possible for v7.0 cross-sectional output to be run through v6.0
longitudinal stream (as v6.0 is the most recent longitudinal stream
version)?
Thanks,
/Andee Sunday Willett, M.S./
/
//_Pronouns_: they/them//
/
//
/
/
/Research Assistant II/
/Department of Neurology, Division of Movement Disorders
/
/Brigham and Women’s Hospital/
//
//
////
/awill...@bwh.harvard.edu <mailto:j...@bwh.harvard.edu>*
*brighamandwomens.org <http://www.brighamandwomens.org/>/
/
/
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