Not sure what is going on here. This one had an mri_watershed failure on the first run. Look at the T1.mgz volume and see if something looks wrongExternal Email - Use Caution
Hello FreeSurfer Developers,
for my project I am using Freesurfer 7.1 to examine the hippocampal volumes of patients with major depressive disorder (and controls) using the automatic segmentation. Therefore I have ran recon-all on all the 242 subjects. 12 of them did exit with an ERROR in form of a hard failure. I had troubles finding enough information online on how I could try to fix them by myself.
The reports state the following:
- for 2 subjects " 3d Normalization pass: could not read source volume brain.mgz\00" - example is subject AIDAB_2017_T1
This one looks like it failed in the first normalization stage. Look at nu.mgz
- for 9 "could not find enough control points" example is subject AIDAB_3097_T1
This is the same as the first one
- for 1 "MRI_watershed Error: global Region of the brain empty" example is subject AIDAB_4007_T1
Is there any chance that there will be a way to include some of the subjects? If needed, I would be happy to send more recon-all.log files, I attached one of each group to this email.
Thank you for your time and support,
Best regards,
Ewa Helene Wacker
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