On 10/21/2021 6:59 AM, Wacker, Ewa Helene wrote:
External 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/
/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 wrong/
for 9 "could not find enough control points" /example is subject AIDAB_3097_T1/
This one looks like it failed in the first normalization stage. Look at nu.mgz
- for 1 "MRI_watershed Error: global Region of the brain empty" /example is subject AIDAB_4007_T1/
/This is the same as the first one/
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
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer