Hi Rosalia

Does /home/rosalia/Desktop/ARTICO/sub-001_ses-BSL_T1w exist? Shouldn’t it have an extension like .nii.gz or .mgz?

Cheers

Bruce

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Rosalia Dacosta Aguayo
Sent: Monday, June 21, 2021 10:49 AM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Problem to run recon-all in one subject

        External Email - Use Caution        

Dear Freesurfer's experts

I am trying to run recon-all -all in a subject and it seems there is a problem I do not know how to solve.

rosalia@rosalia-Lenovo-Y520-15IKBN ~/Desktop $ recon-all -s sub-001_ses-BSL -i /home/rosalia/Desktop/ARTICO/sub-001_ses-BSL_T1w -T2 /home/rosalia/Desktop/ARTICO/sub-001_ses-BSL_T1w -T2pial -all
ERROR: cannot find /home/rosalia/Desktop/ARTICO/sub-001_ses-BSL_T1w
Linux rosalia-Lenovo-Y520-15IKBN 4.10.0-40-generic #44~16.04.1-Ubuntu SMP Thu Nov 9 15:37:44 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s sub-001_ses-BSL exited with ERRORS at Mon 21 Jun 16:45:13 CEST 2021

For more details, see the log file  (there is no log file created)
To report a problem, see MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

rosalia@rosalia-Lenovo-Y520-15IKBN ~/Desktop $ cd ARTICO
rosalia@rosalia-Lenovo-Y520-15IKBN ~/Desktop/ARTICO $ ls
fsaverage                sub-001_ses-BSL_T2w.nii  sub-003_ses-BSL_T1w.nii
sub-001_ses-BSL_T1w.nii  sub-003_ses-BSL          sub-003_ses-BSL_T2w.nii
rosalia@rosalia-Lenovo-Y520-15IKBN ~/Desktop/ARTICO $

Any idea would be very appreciated.

Kind regards,

Rosie