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=sharing