Thanks Doug! Unfortunately, removing the parallel flag didn’t help:
“ … After retessellation of defect 43 (v0=79551), euler #=-51 (145804,431777,285922) : difference with theory (-68) = -17 CORRECTING DEFECT 44 (vertices=9236, convex hull=4698, v0=79649) Command terminated by signal 11 @#@FSTIME 2021:11:17:14:54:07 mris_fix_topology N 14 e 12788.52 S 1.14 U 12786.35 P 99% M 1761016 F 0 R 581366 W 0 c 79248 w 3 I 0 O 3960 L 1.01 1.00 1.00 @#@FSLOADPOST 2021:11:17:18:27:16 mris_fix_topology N 14 1.00 1.00 1.00 “
Any ideas? Thanks again, Noam
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Douglas N. Greve Sent: Wednesday, November 17, 2021 10:09 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] recon-all reconbatchjobs Segmentation fault
I'm not sure what is happening. Does it work without the parallel flag? btw, you are not using 7.2 here's your build: build-stamp.txt: freesurfer-linux-ubuntu18_x86_64-dev-20210824-e101185
On 11/16/2021 4:26 PM, Peled, Noam wrote:
Dear Freesurfer group,
I was running recon-all (Freesurfer 7.2 on Ubuntu) and received the following error:
“
mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 UC07 rh
Waiting for PID 6337 of (6337 6340) to complete...
Waiting for PID 6340 of (6337 6340) to complete...
/home/basuia/Documents/mmvt_root/freesurfer/bin/reconbatchjobs: line 77: 6340 Segmentation fault (core dumped) exec $JOB >> $LOG 2>&1
PIDs (6337 6340) completed and logs appended.
“
Please find the log file attached.
Any idea what is the problem?
Thanks,
Noam
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer