Hi Keith, what version of ubuntu are you using?
Best
Andrew
From: "Iglesias Gonzalez, Juan E." <jiglesiasgonza...@mgh.harvard.edu>
Date: Friday, December 4, 2020 at 4:42 PM
To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Cc: "Hoopes, Andrew" <ahoo...@mgh.harvard.edu>
Subject: Re: [Freesurfer] segmentHA_T1.sh failing {Disarmed}
Dear Keith,
It is a license problem. The hippo/amygdala module relies on
mri_robust_register for initialization, and this program is failing due to the
aforementioned license problem. Once that has been fixed, the hippocampal
module should be fine.
Regarding the license problem: I have no idea, but I am CCing Andrew Hoopes,
who hopefully will be able to help.
Cheers,
/Eugenio
Juan Eugenio Iglesias
Senior research fellow
CMIC (UCL), MGH (HMS) and CSAIL (MIT)
http://www.jeiglesias.com
From: <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Keith Harenski
<kharen...@mrn.org>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Friday, December 4, 2020 at 16:24
To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] segmentHA_T1.sh failing {Disarmed}
External Email - Use Caution
Hello,
I am getting a strange message when trying to run the amygdala and hippocampal
sementations, even when attempting to run the script on someone who the script
previously completed.
When it starts, the script immediately displays the following message:
error parsing license file, expected 4 values
The license error message further instructs libc requires a newly formatted
license so I got a new one. The new one is identical to the original however
and it has four entries - my email address, a five digit number, followed by
two alphanumeric strings..
The script then seems to start, will run for about 30 seconds or so then stop
again with the following message:
Error using segmentSubjectT1_autoEstimateAlveusML (line 533)
Fitting mesh to synthetic image resulted in no deformation
...
T1 hippocampal subfields exited with ERRORS at Thu Dec 3 15:56:32 MST 2020
I get slightly different errors when running on another subject, who like the
one above, previously completed. For this subject the license error is more
persistent:
error parsing license file, expected 4 values
I've attached the hippocampal-subfields-T1.log for the first subject as it
contains the full output.
Thank you,
Keith
--
Keith Harenski
Mobile MRI Manager
Mobile MRI Core and Clinical Cognitive Neuroscience Laboratory
The Mind Research Network
1101 Yale Blvd NE Albuquerque, NM 87106-4188
Office (Cell): 505.504.1338 | Fax: 505.272.8002
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