wow, that is weird. The RH extends far into the LH. What does the aseg.presurf.mgz look like? Are the cortices and WM properly separated left-right?
On 11/15/2021 4:33 AM, Alec Süwolto wrote:
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Hello freesurfers,
I’m new to freesurfer and I can’t fix a hard failure of recon-all.
The error message is:
CORRECTING DEFECT 0 (vertices=94923, convex hull=13109, v0=0)
error: Cannot allocate memory
error: Excessive topologic defect encountered: could not allocate 518210721 edges for retessellation
The first thing I did was to fix a giant missing part of the brain in the brainmask.mgz by adjusting the watershed parameters.
Unfortunately that only brought the defective edges down from 723387666 to „only“ 518210721.
I tried locating the error with the help of lh.defect_labels. But adjusting the threshold to look for defect 0 (min:0/max:1) just shows almost the whole brain in red.
The most obvious problem seems to be that the lh.orig.nofix and rh.orig.nofix are not seperated in the center. Unfortunately I don’t know how to fix this.
What kind of actions would you recommend?
Many thanks,
Alec
Here is a link to the subject folder: https://drive.google.com/drive/folders/1npA2yyjFxk2UEVbByTcIlMizKWSGPjKr?usp...
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