[Freesurfer] Freesurfer v. 7.3.2 careg error

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Dear Freesurfer Support, Under older versions of Freesurfer such as 7.2.0 I can split recon-all into two stages: recon-all -autorecon1 -noskullstrip -s sub -i sub.nii.gz Manually create brainmask.mgz recon-all -autorecon2 -autorecon3 -s sub Using freesurfer v. 7.3.2 this fails. I looked at the log file and in the -autorecon2 stage the steps go straight from mri_ca_normalize to mri_ca_label missing out mri_ca_register so no transforms/talairach.m3z file is created. I modified the second part to recon-all -autorecon2 -autorecon3 -careg -s sub and then it completed without error. Maybe this is intentional and there is another recommended way to do this multistage pipeline. Thanks, Simon