Hi there,
I am having trouble with one of my scans where the right hemisphere is not getting included in the analysis from the "Fix Topology rh" point on. This is the error message I get:
Linux cnode-2-52 2.6.18-308.el5 #1 SMP Tue Feb 21 20:06:06 EST 2012 x86_64 x86_64 x86_64 GNU/Linux $Id: recon-all,v 1.133.2.57 2009/08/06 18:27:48 nicks Exp $ /SCRATCH4/cubic/auhlmann/freesurfer/bin/recon-all PWD /lustre/SCRATCH4/cubic/auhlmann/freesurfer/subjects/meth_output_test3/MAS112.12.1107.5.2/scripts CMD mris_topo_fixer -mgz -warnings -seed 1234 MAS112.12.1107.5.2 rh
The orig.mgz looks OKish (it's not great) except for some kind of a scanner artifact in 2 slices of the scan. I tried to fix it with control points and making edits to the white matter, but unfortunately it didn't solve the problem. I am grateful for any suggestions.
Thank you and best regards, Anne
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UNIVERSITY OF CAPE TOWN
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