You should load that volume along with the orig.nofix hemisphere that is
giving you problems and look for a large area that should not be within
the surface
On 5/5/2020 1:23 PM, Zeng, Qi wrote:
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Hi Douglas,
The cerebrum is removed and with no skull attached.
However, compared to others that run normally, it may have problems
with white matter segmentation and missing brainstem (no clear).
Attached the comparison below. Can you help figure it out?
Thank you so much!
Best,
Qi
On Tue, May 5, 2020 at 11:36 AM Douglas N. Greve
<dgr...@mgh.harvard.edu <mailto:dgr...@mgh.harvard.edu>> wrote:
You should look at the wm.mgz to see where the defect is. Probably
cerebellum is still attached or maybe a big piece of skull.
On 5/4/2020 11:19 PM, Zeng, Qi wrote:
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Hi,
I've conducted longitudinal T1 recon-all. One subject's last-scan
ran into error in the first independent recon all step: "
recon-all -s SUBJ1 -SUBJ1.nii -all'.
Error: "CORRECTING DEFECT 0 (vertices=14101, convex hull=2297,
v0=1419) XL defect detected...". Log file attached below.
I've increased the memory usage limit as some suggestions did,
but no help. Also T1.nii looks fine, same parameter setting as
first scan, also attached below. Subject first scan and all the
other subjects were finished without errors. Can you help figure
out what has caused it?
Thank you so much!
Best,
Qi
--
Ph.D. candidate
Icahn School of Medicine at Mount Sinai
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Ph.D. candidate
Icahn School of Medicine at Mount Sinai
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