External Email - Use Caution
Dear,
Apologies, this is a copy and paste error the full command was:
#mri_gtmpvc --i
/autofs/cluster/atassigp/Users/Donatienne/Analyses_freesurfer/recon_flair/$word/mri/SUVR/SUVR_cerebellum.nii.gz
--reg
/autofs/cluster/atassigp/Users/Donatienne/Analyses_freesurfer/recon_flair/$word/mri/suv.reg.lta
--psf 5 --seg
/autofs/cluster/atassigp/Users/Donatienne/Analyses_freesurfer/recon_flair/$word/mri/gtmseg.mgz
--default-seg-merge --auto-mask 5 0.01 --rbv --o
/autofs/cluster/atassigp/Users/Donatienne/Analyses_freesurfer/recon_flair/$word/PVC/gtmpvc.output.suvrcerebellum.spmreg
--no-rescale --threads 8
Kind regards
Donatienne
________________________________
Van: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> namens Tim Schäfer <ts...@rcmd.org>
Verzonden: woensdag 13 maart 2019 23:22:07
Aan: Freesurfer support list
Onderwerp: Re: [Freesurfer] Segmentation fault
External Email - Use Caution
> On March 13, 2019 at 9:18 PM Donatienne Van Weehaeghe
> <donatienne.vanweehae...@uzleuven.be> wrote:
> The code I tried to run:
>
> #mri_gtmpvc --i SUVR_cerebellum.nii.gz --reg suv.reg.lta --psf 5 --seg
> /gtmseg.mgz --default-seg-merge --auto-mask 5 0.01 --rbv --o
> gtmpvc.output.suvrcerebellum.spmreg --no-rescale --threads 8
>
Is that slash in the part '--seg /gtmseg.mgz' a copy & paste error? If not: it
is very likely that the file does not exist in that location.
I'm not sure though whether that is the cause of the error. I would rather
expect a "file not found" error message instead of a seg fault in that case.
But it's worth checking.
--
Tim
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