External Email - Use Caution
Hi Doug,
Thanks for looking over that file. It is the correct recon-all file for one of
the problem brains. I discovered that there was a system reboot of some sort
when the recon-all was processing for these problem brains, so that is likely
what caused the process to stop. How can I restart the recon-all process for
these brains? I have tried just rerunning the recon-all command but the process
exits within a few moments each time. I am wondering if there is something I
need to delete that was partially processed during the first attempt.
Thanks,
Laurel
________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Greve, Douglas N.,Ph.D.
<dgr...@mgh.harvard.edu>
Sent: Friday, January 24, 2020 9:34 AM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] recon-all errors - mri_segstats and
mri_relabel_hypointensities
It did not look like there was an explicit error in that log file, it just
stops at mris_volmask. Is that the right recon-all? Also, please just send the
text file so that we don't have to unzip it.
On 1/22/2020 4:39 PM, Laurel Quinlan wrote:
External Email - Use Caution
Hi FS Support,
I have two brains for which recon-all exited with errors after I edited the
wm.mgz volume. It seems that the problem occurs during the mri_segstats and
mri_relabel_hypointensities steps (if I'm reading the output of the command
"tail scripts/recon-all.log" correctly). I attached one of the recon-all.log
files as a zipped txt file. Please let me know if you have troubleshooting
suggestions.
Thank you for your help!
Laurel Quinlan
Research Specialist
Center for Healthy Minds
University of Wisconsin-Madison
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