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

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