Did the perms to that file change during the run?
On 2/17/2022 10:36 AM, Jacoby, John wrote:
Hi all,
I have a recon that looks like it ran (almost) to completion, but then
threw a permissions error in the stdout and directed me to the log. I
can't determine what the issue might have been. I've attached the .log
file as well as .error and .done files. I'll also paste the end of the
stdout below because for some reason the permissions error was not
captured by the log file. I appreciate any insight anyone can give.
Best,
John
end of stdout:
tee:
/autofs/vast/bandlab/studies/kyoto_preliminary/data/derivatives/freesurfer/sub-LALM61_ses-LALM61/scripts/recon-all.log:
Permission denied
setting seed for random number generator to 1234
total integrated curvature = 26.759*4pi (336.266) --> -26 handles
ICI = 173.9, FI = 1548.0, variation=24893.111
writing Gaussian curvature to ./rh.white.preaparc.K...done.
writing mean curvature to ./rh.white.preaparc.H...done.
@#@FSTIME 2022:02:17:09:34:06 mris_curvature N 4 e 1.41 S 0.03 U 1.30
P 94% M 157860 F 0 R 20801 W 0 c 20 w 53 I 0 O 2176 L 1.29 1.25 1.20
@#@FSLOADPOST 2022:02:17:09:34:07 mris_curvature N 4 1.29 1.25 1.20
Linux erso.nmr.mgh.harvard.edu 4.18.0-365.el8.x86_64 #1 SMP Thu Feb 10
16:11:23 UTC 2022 x86_64 x86_64 x86_64 GNU/Linux
tee:
/autofs/vast/bandlab/studies/kyoto_preliminary/data/derivatives/freesurfer/sub-LALM61_ses-LALM61/scripts/recon-all.log:
Permission denied
recon-all -s sub-LALM61_ses-LALM61 exited with ERRORS at Thu Feb 17
09:34:08 EST 2022
tee:
/autofs/vast/bandlab/studies/kyoto_preliminary/data/derivatives/freesurfer/sub-LALM61_ses-LALM61/scripts/recon-all.log:
Permission denied
tee:
/autofs/vast/bandlab/studies/kyoto_preliminary/data/derivatives/freesurfer/sub-LALM61_ses-LALM61/scripts/recon-all.log:
Permission denied
For more details, see the log file
/autofs/vast/bandlab/studies/kyoto_preliminary/data/derivatives/freesurfer/sub-LALM61_ses-LALM61/scripts/recon-all.log
To report a problem, see
http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
BugReporting - Free Surfer Wiki
<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>
top. Bug Reporting. Submitting a request for help . When submitting a
request for help with your problems please be aware that the
developers will try and repeat your ...
surfer.nmr.mgh.harvard.edu
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://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
