What do you see when you run: ls /media/brain/brains/TN_retro/Tracula/AN01/mri

________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Lin, Yizhi [liny@union.edu] Sent: Monday, August 07, 2017 3:22 PM To: Freesurfer support list Subject: Re: [Freesurfer] TRACULA ERROR!!

Dear Anastasia, I used dicom images to run my subjects, and yes, those freesurfer recons were found in SUBJECTS_DIR in my configuration file. Thanks.

best,

Ariel

On Mon, Aug 7, 2017 at 2:39 PM, Yendiki, Anastasia <AYENDIKI@mgh.harvard.edumailto:AYENDIKI@mgh.harvard.edu> wrote: Hi Ariel – Have you run freesurfer on the structural images of your subjects? Are those freesurfer recons found in what you have defined as SUBJECTS_DIR in your configuration file?

Best,

a.y

From: <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of "Lin, Yizhi" <liny@union.edumailto:liny@union.edu> Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Date: Monday, August 7, 2017 at 12:00 AM To: "freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Subject: [Freesurfer] TRACULA ERROR!!

Dear fellow researchers,

I am running tracula pre-processing step, and the computer showed an error message: Location of aparc+aseg's relative to base: dlabel/mni/aparc+aseg.nii.gz Brain mask for output subject: Segmentation fault (core dumped) Linux Brain 4.2.0-27-generic #32~14.04.1-Ubuntu SMP Fri Jan 22 15:32:26 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux

trac-preproc exited with ERRORS at Sun Aug 6 23:37:59 EDT 2017

I am sure that I have the aparc+aseg file in the right directory but it showed that the files are missing.....

I would be really appreciated if anyone could please help!!! Thanks so much!!!

PS: I attached trac-all.log as an attachment. Thanks

Sincerely,

Ariel

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