Hi James,
Try cd`ing to your home directory, then running:
curl https://raw.githubusercontent.com/freesurfer/freesurfer/fs-7.1/scripts/recon... > recon-all sudo mv recon-all $FREESURFER_HOME/bin
best Andrew
From: James Hartzell james.hartzell@gmail.com Date: Saturday, September 19, 2020 at 10:17 AM To: "Hoopes, Andrew" AHOOPES@mgh.harvard.edu, FS Help freesurfer@nmr.mgh.harvard.edu Subject: recon-all 7.1.1
External Email - Use Caution Hi Andrew
Thanks for the suggestions. I removed freesurfer and reinstalled just 7.1.1. When I try to run the original patch you suggested I still get permissions problems, even with sudo.
(base) jameshartzell@Jamess-MacBook-Pro ~ % which freesurfer /Applications/freesurfer/7.1.1/bin/freesurfer
(base) jameshartzell@Jamess-MacBook-Pro freesurfer % cd $FREESURFER_HOME/bin
(base) jameshartzell@Jamess-MacBook-Pro bin % sudo mv recon-all recon-all.backup Password:
(base) jameshartzell@Jamess-MacBook-Pro bin % sudo curl https://raw.githubusercontent.com/freesurfer/freesurfer/fs-7.1/scripts/recon... > recon-all zsh: permission denied: recon-all
Here's hoping you can send another fix!
Cheers James
-- James Hartzell, PhD (2x) Donostia-San Sebatián, Spain Center for Mind/Brain Sciences (CIMeC), The University of Trento, Italy Center for Buddhist Studies, Columbia University, USA