Hi Sarah I think you didn't give it any flags other than the subject and input. You need to specify -all if you want it to run all the steps it knows how to
Cheers Bruce From: freesurfer-boun...@nmr.mgh.harvard.edu <freesurfer-boun...@nmr.mgh.harvard.edu> On Behalf Of O'Dor, Sarah,PhD Sent: Tuesday, November 15, 2022 9:31 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] aseg.mgz not created Good morning, Recon-all finished without error, but no aseg.mgz file was created. I cannot find any errors in the recon-all.log (attached) to indicate what may have happened. Any suggestions on how to troublshoot this? Thank you, Sarah
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline <https://www.massgeneralbrigham.org/complianceline> . Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
