I tried recon-all-clinical and there are two main problems
1) I ran it on a T1-MPRAGE image and it looks fine except that there are no lateral ventricles in the output. See attached.
2) I get lots of errors at the end.
I read the following note in the release notes:
Please replace $FREESURFER_HOME/bin/recon-all-clinical.sh with the latest version HERE. Development versions newer than June 15th 2023 do not have this problem.]
I am not a linux expert, so I don't know how to download that file. If I could download it I am sure I could manage to replace it in the bin directory.
I made an attempt by clicking on the link and copying the text from my browser into a new text file. I used this to replace the supplied file, but I still get errors. Maybe I screwed up.
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