Hi Bruce


Thank you very much for  your reply.

Here is my command:

recon-all -all -s ${subj} -i  ./${subj}/anat/016/mT1v2.nii -expert  ./scripts/expertopts/expert.opts -hires -mail zn025 -parallel

I also attached my .log file.


Thanks

MOna


From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Bruce Fischl <fischl@nmr.mgh.harvard.edu>
Sent: Thursday, February 21, 2019 2:23:14 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] recon-all -hires
 
Hi MOna


what was your full command line? And can you send us the recon-all.log
file?

cheers
Bruce
On Thu, 21 Feb 2019, Nasiriavanaki, Zahra wrote:

>
> Dear Freesurfer experts
>
>
> I was running recon-all command with hires flag for our high resolution fMRI data, but it has been in a
> constant status since yesterday.
>
> I copied the last few lines that are currently in my terminal. I had the same issue with another
> subject before, and I had to terminate the recon-all and run it without -hires.
>
> Could you please let me know how I can solve this issue?
>
>
> Thanks
>
> Mona
>
>
>
> #@# Fix Topology Copy rh Wed Feb 20 19:50:00 EST 2019
> /autofs/space/oprah_001/users/jvm27/looming/SUBJECTS_DIR/inul_loom2_7T/scripts
>
>  cp ../surf/rh.orig.nofix ../surf/rh.orig 
>
>
>  cp ../surf/rh.inflated.nofix ../surf/rh.inflated 
>
> #@# Fix Topology lh Wed Feb 20 19:50:03 EST 2019
>
>  mris_fix_topology -rusage/autofs/space/oprah_001/users/jvm27/looming/SUBJECTS_DIR/inul_loom2_7T/touch/rusage.mris_fix_topology.
> lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 inul_loom2_7T lh 
>
> #@# Fix Topology rh Wed Feb 20 19:50:03 EST 2019
>
>  mris_fix_topology -rusage/autofs/space/oprah_001/users/jvm27/looming/SUBJECTS_DIR/inul_loom2_7T/touch/rusage.mris_fix_topology.
> rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 inul_loom2_7T rh 
>
> Waiting for PID 8994 of (8994 8997) to complete...
>
>
>
>
>