Hello,

I have made edits to aseg files in the longitudinal outputs (participantID.long.participantID-temp). I am beginning the reconstruction phase and as suggested by a response to an earlier post I am running: recon-all -long tpN1 template ID -autorecon2-noaseg -autorecon3, where tpN1 is cross-sectional output and template ID is the template of the participant. 

My questions are:

1)  Does the script essentially take the edits I made in the aseg longitudinal outputs and reconstructs the longitudinal files using the cross and template files?

2) Does this script begin running recon-all during recon-all2, after the aseg files are suppose to be created?

Thank you,

Tamara