External Email - Use Caution
After increasing the RAM capacity, recon-all is running smoothly, so I believe
the issue was indeed due to insufficient memory. Thank you for your help.
At 2024-11-12 23:49:48, "Douglas N. Greve" <dgr...@mgh.harvard.edu> wrote:
Can you take a look at your images and the aseg.presurf.mgz segmentation and
the rh.orig.nofix? The program that is throwing an error is trying to determine
where the non-cortical medial wall is based on the aseg and the orig.nofix. If
one or both of those are bad, then it may fail.
On 11/11/2024 8:47 AM, 王又劼 wrote:
External Email - Use Caution
Hello FreeSurfer Developers,
Thank you to the development team for integrating deep learning-based image
processing pipelines! I encountered the following error while running the
recon-all -all command in FreeSurfer 8.0.0-beta:
mri_label2label --label-cortex
/usr/local/freesurfer/8.0.0-beta/subjects/sub-JS_test/surf/rh.orig.nofix
/usr/local/freesurfer/8.0.0-beta/subjects/sub-JS_test/mri/aseg.presurf.mgz 0
/usr/local/freesurfer/8.0.0-beta/subjects/sub-JS_test/label/rh.nofix.cortex.label
double free or corruption (out)
Abort (core dumped)
ERROR:
Command exited with non-zero status 1
This subject was successfully processed with FreeSurfer 7. I would like to know
if this issue is related to insufficient memory or if it could be due to other
reasons. Thank you again for your dedication and efforts.
(base) root@LXG:~# free
total used free shared buff/cache available
Mem: 32671564 688124 31172704 4728 810736 31547224
Swap: 8388608 118036 8270572
Best regards,
Youjie Wang
1) FreeSurfer version: freesurfer_ubuntu22-8.0.0-beta_amd64.deb
2) Platform: Windows WSL2
3) uname -a: Linux LXG 5.15.153.1-microsoft-standard-WSL2 #1 SMP Fri Mar 29
23:14:13 UTC 2024 x86_64 x86_64 x86_64 GNU/Linux
4) recon-all.log: see attached
_______________________________________________
Freesurfer mailing list
freesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Mass General Brigham
Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline
<https://www.massgeneralbrigham.org/complianceline> .
Please note that this e-mail is not secure (encrypted). If you do not wish to
continue communication over unencrypted e-mail, please notify the sender of
this message immediately. Continuing to send or respond to e-mail after
receiving this message means you understand and accept this risk and wish to
continue to communicate over unencrypted e-mail.
