That worked, thanks!

________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Dicamillo, Robert RDICAMILLO@mgh.harvard.edu Sent: Tuesday, April 17, 2018 11:47:02 AM To: Freesurfer support list Subject: Re: [Freesurfer] mri_deface keeps seg faulting

Can you ls /usr/local/freesurfer/stable6/bin

If so, you could put that at the start of your path to get the release 6 binaries.

-rob

On Apr 17, 2018, at 11:39 AM, Warner, Graham Cary <GWARNER@mgh.harvard.edumailto:GWARNER@mgh.harvard.edu> wrote:

Hi,

I'm trying to deface an MEMPRAGE dataset using the following command:

[jazz:test_deface] (nmr-stable53-env) mri_deface outSubDir/mri/orig/001.mgz talairach_mixed_with_skull.gca face.gca sample_T1_input_defaced.mgz

and am getting the output:

logging results to sample_T1_input_defaced.log reading 'talairach_mixed_with_skull.gca'... reading 'outSubDir/mri/orig/001.mgz'... changing type of input volume to 8 bits/voxel... MRIchangeType: Building histogram Segmentation fault (core dumped)

I'm using the Martinos center's default version of mri_deface located at /usr/local/freesurfer/stable5_3_0/bin/mri_deface. I'm using the talairach_mixed_with_skull.gca and face.gca sample files found onhttps://surfer.nmr.mgh.harvard.edu/fswiki/mri_deface but the actual input mgz came from a scanner here at the center. Maybe this is a CentOS 7 compatibility problem? Please let me know if there is any other information I can provide.

Thank you, Graham _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer