Peggy,

Also see section 1.1.2 of:

https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Troubleshooting

for pons troubleshooting tips.

On Thu, 2005-10-13 at 15:48 -0400, Bruce Fischl wrote:

Hi Peggy,

it means it couldn't find the pons in the filling. Pick it manually

Bruce On Thu, 13 Oct 2005, peggy christidis wrote:

...

I'm helping out an intern here who is working on monkey volumes in FreeSurfer. He has gotten to the point where he has a decent looking white matter segmentation, but when he tries to proceed with filling the white matter, he says he gets the following error: "Failed to find brain stem". At this point I don't have any additional information to give you (sorry), but has anyone ever encountered this problem? Any idea what "failed to find brain stem" might mean?

Thanks, peggy _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

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