The file recon-all.log in the scripts dir for each subject should have any error messages. Usually we start looking at the end of them to see what happened.
Cheers Bruce
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of REEM ABU BAKR BAHATHIQ Sent: Tuesday, March 1, 2022 5:10 PM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] check recon-all errors
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Hello Freesurfer experts
I ran the full Recon-all pipeline on my 400 .scans data. I wanted to get the "wmparc.mgz" image of each subject. But I couldn't find it in some of them !!
Where can I find the error file for the subject, as I think the process is not completed here?
I would also like to inquire about the way to restart Recon-all from where the pre-processing stopped. How can I determine which step stopped processing and what should I write from a command in Linux to complete the processing process?
The attached picture shows the processing output for the subject that I think something went wrong with it
Thanks in advance [cid:image001.png@01D82D91.CD32B570]
