This is from your recon-all.log: “ setenv SUBJECTS_DIR /home/ubuntu/freesurfer/subjects FREESURFER_HOME /home/ubuntu/freesurfer Actual FREESURFER_HOME /home/ubuntu/Freesurfer “ Your SUBJECTS_DIR points to your Freesurfer install directory - /home/ubuntu/freesurfer/subjects. I’m not sure if this is the reason for the failure. But it is a good idea to set SUBJECTS_DIR to some other directory where you have write permissions.
Can you re-set SUBJECTS_DIR and try again?
Best,
Yujing
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Francesco Lomi Sent: Thursday, February 8, 2024 11:44 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mpr2mni305 failed
External Email - Use Caution Yes, sure. This is the file Thanks.
Il giorno gio 8 feb 2024 alle ore 17:03 Huang, Yujing <YHUANG43@mgh.harvard.edumailto:YHUANG43@mgh.harvard.edu> ha scritto: Can you re-send recon-all.log as attachment?
From: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Francesco Lomi Sent: Thursday, February 8, 2024 10:58 AM To: freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] mpr2mni305 failed
External Email - Use Caution Hello everybody,
I'm new on Freesurfer and I've installed the software on my Ubuntu 20.04 machine. The installation should be fine. just tried to run recon-all on my subject data but i got stuck on the following error you can see on the screenshot:
[cid:image001.png@01DA5A85.3BA7E4E0]
Any idea on how to fix this? Thank you in advance
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