Can you run it with -debug as the first option and send me the (copious) terminal output? Even better if you can send me the data so I can try it out in the soon-to-be-released version 7. Instructions below

From the linux command line,
Create the file you want to upload, eg,
cd $SUBJECTS_DIR
tar cvfz subject.tar.gz ./subject
Now log  into our anonymous FTP site:
ftp surfer.nmr.mgh.harvard.edu
It will ask you for a user name: use "anonymous" (no quotes)
It will ask you for a password: use "anonymous" (no quotes)
cd transfer/incoming
binary
put subject.tar.gz
Send an email that the file has been and the name of the file.

On 4/17/2020 12:29 PM, Soichi Hayashi wrote:

        External Email - Use Caution        

Hello. 

I am trying to run recon-all on HCP7T data and seeing this error message.

****************************************
ERROR! FOV=268.800 > 256
Include the flag -cw256 with recon-all!
Inspect orig.mgz to ensure the head is fully visible.
****************************************

I've looked at orig.mgz, and it looks fine to me (screenshot attached).

Anyway, I've added the -cw256 option to the command line.

$ recon-all -i ../5e977c0dfe00f4e4b4976207/5a052586eec2b300611abffc/t1.nii.gz -subject output -all -parallel -openmp 8 -hippocampal-subfields-T1 -hires -cw256

However, I am still seeing the same error message saying that I should add the flag -cw256. Am I setting this option incorrectly? I am using freesurfer version 6.0.0.

Thank you!

Soichi Hayashi

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_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer