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Hello Bruce,
We are trying to get the pial surface file for both hemisphere. However, freesurfer would freeze after a while at a XL defect. Since the hemisphere without tumor also has little holes, I thought this might have other reasons.
Best, Chuizheng Kong
On Tue, Dec 10, 2019 at 8:58 AM Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Does your 3D model need to be topologically correct? What are you trying to achieve? And are the holes/handles due to the tumor? Can you send us some images?
cheers Bruce On Tue, 10 Dec 2019, Kong Chuizheng wrote:
External Email - Use CautionHello Freesurfer Developers,
We are trying to construct a 3D cortex model of a tumour subject. The
recon-all.log showed that the
program froze at Correction of the Topology with "XL defect detected." I
followed the procedure of the
online tutorial page (
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/TopologicalDefect_freev... )
and found that there's lots of "holes" and sharp abnormal shapes in the
lh/rh.smoothwm.nofix file. It
will be very hard to fix this by hand, and we wonder if you can give us
some advice.
Sincerely,
Chuizheng Kong
Chuizheng Kong
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
