Hi Michele,
Looks like the base error here is:
ncopen: filename "./tmp.mri_nu_correct.mni.6973/nu1.mnc": Not a netCDF file
My immediate guess is this is a version incompatibility. You mentioned that you
reinstalled minc tools? How so and with what version? Also, what was the
previous nu_correct error you were getting?
best,
Andrew
From: <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Michele Valotti
<michele.valo...@gmail.com>
Reply-To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Date: Monday, January 4, 2021 at 10:49 AM
To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] mincRead error in recon-all
External Email - Use Caution
Dear Freesurfer Team,
I am trying to run recon-all on a test scan, but I am getting this error:
Error opening ./tmp.mri_nu_correct.mni.6973/nu1.mnc
mincRead(): error reading volume from file ./tmp.mri_nu_correct.mni.6973/nu1.mnc
(logs attached)
I just reinstalled minc tools due to a nu_correct error I was getting, not sure
if this could be a problem. I read on the mailing list that it could be a
permission error but trying the suggested solutions did not solve the problem
running ls -l tmp.mri_nu_correct.mni.3787/nu1.mnc
returns -rw-rw-r-- 1 michele michele 22990022 Jan 4 15:01
tmp.mri_nu_correct.mni.3787/nu1.mnc
Any help is greatly appreciated
Thank you
Michele
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