You did not tell recon-all to do anything:) Try adding -all to your command line
On 11/13/19 2:10 PM, Dalton Bermudez wrote:
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---------- Forwarded message --------- From: *Dalton Bermudez* <daltonhbermudez@gmail.com mailto:daltonhbermudez@gmail.com> Date: Wed, Nov 13, 2019 at 1:54 PM Subject: recon-all error: ltMNIreadEx: could not open file transforms/talairach.xfm To: <freesurfer@nmr.mgh.harvard.edu mailto:freesurfer@nmr.mgh.harvard.edu>
Dear FreeSurfer Developers,
I am attempting to obtain a average cortical surface for two structural MRI nii dataset. However, when I run the command, I obtain the following errors.
error: No such file or directory error: ltMNIreadEx: could not open file transforms/talairach.xfm error: mghRead(/home/dbermudez/Documents/subjects/00_0086/mri/orig.mgz, -1): could not open file ERROR readMNI: cannot read src MRIorig.mgz
FreeSurfer version: freesurfer-linux-centos6_x86_64-dev Platform: Linux Ubuntu 18.05 recon-all.log: see attachment
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