Hi Oshadi - Is this the same subject as before, the one that runs on your workstation but not on the cluster? Did the first error message (killed when loading the bedpostx samples) get solved?

More generally, it's hard to tell what caused an error just by looking at the last few lines of output. Please attach your entire trac-all.log file.

Thanks,
Anastasia.
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Shanika Jayakody <shanika.jayakody@einsteinmed.edu>
Sent: Monday, July 25, 2022 3:22 PM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Tracula error in path construction
 

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Hi Anastasia
Thanks so much for the reply.
My trac-path worked until last step-it says dmric path done but it exited without creating a merged_avg_16_syn_bbr and I also dont see pathoverall stat etc for individual tracts
The error I get is: 
fslmaths /gs/gsfs0/users/helena_blumen_lab/TRACULA//30018/dpath/acomm_avg16_syn_bbr/path.pd.nii.gz -thr /gs/gsfs0/users/helena_blumen_lab/TRACULA//30018/dpath/acomm_avg16_syn_bbr/tmp.nii.gz
Error: no output filename specified!
I am not sure if I am supposed to specify a output file name in the configuration file ( in addition to output directory)

Also, I have used a similar configuration file for other subjects -their pre-processing is done without errors but they miss nodif_brain_mask.nii so I can't run bedpostx

Any suggestion on what I can try for both these issue is really appreciated
Oshadi
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Yendiki, Anastasia <AYENDIKI@mgh.harvard.edu>
Sent: Thursday, July 21, 2022 4:30 PM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Tracula error in path construction
 
Could be that you reached a memory limit? If the same analysis runs fine on your computer, then it's probably a cloud issue, not a TRACULA issue.
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Shanika Jayakody <shanika.jayakody@einsteinmed.edu>
Sent: Thursday, July 21, 2022 3:58 PM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Tracula error in path construction
 

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Dear Anastasia
I am running tracula on FreeSurfer 7.2. 
It worked fine on a linux computer now I am changing to a Cloud workstation. 
Attached is my Configuration file. For this person the pipeline worked without errors until path reconstruction but exists saying the following 
I have checked my bvecs and bvals in the subjects directory and also in dmri
Any suggestion for me to try would be great-thanks so much! I tried to attach the trac-all log file but then the email is too big to be posted.
Oshadi

Loading DWIs from /gs/gsfs0/users/helena_blumen_lab/TRACULA//30018/dmri/data.nii.gz
Loading mask from /gs/gsfs0/users/helena_blumen_lab/TRACULA//30018/dlabel/diff/aparc+aseg_mask.bbr.nii.gz
Loading BEDPOST parameter samples from /gs/gsfs0/users/helena_blumen_lab/TRACULA//30018/dmri.bedpostX
Killed
Linux sjayakody 4.18.0-348.el8.x86_64 #1 SMP Mon Oct 4 12:17:22 EDT 2021 x86_64 x86_64 x86_64 GNU/Linux