Hi Luisa,
There seems to be an error opening the T1.mgz file. Is there a T1.mgz file in
your mri folder?
Best,
Jocelyn
________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Bohorquez Montoya, Luisa
<lbohorq...@mcw.edu>
Sent: Monday, January 18, 2021 10:58 AM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Recon-all log
External Email - Use Caution
Good morning freesurfer, I am new using recon all. Would you mind to help me
with this error I am getting? What should I do?
Attached is the log and here is my command.
recon-all \
-subject ${ANATDIR} \
-i ${ANATDIR}/${subject}/*Ax_FSPGR_3D_GR.nii.gz \
-T2 ${ANATDIR}/${subject}/*Ax_T2_FLAIR_SE_IR.nii.gz \
-T2pial \
-parallel -openmp 12 \
Thank you so much for your time
Luisa Bohorquez, PhD.
Department of Psychiatry,
Medical College of Wisconsin.
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