External Email - Use Caution        

Hi again,

I did try to amend the VERSION line to what is listed in the original 7.1.0 file, yet I still received the "Command not found" error. I have attached output with and without --debug flag when executing the original 7.1.0 reg-feat2anat vs. the updated file from the command line. The original lists the reg-feat2anat usage/options as one would expect.

Any other suggestions you all might have regarding how to troubleshoot would be greatly appreciated.

Thanks again for your time,
Erin

--
Erin Walsh, Ph.D.
Assistant Professor
University of North Carolina-Chapel Hill
Department of Psychiatry
Chapel Hill, NC 27599-3367
erin_walsh@med.unc.edu
pronouns: she/her

From: Walsh, Erin <erin_walsh@med.unc.edu>
Sent: Monday, November 16, 2020 12:13 PM
To: Douglas N. Greve <dgreve@mgh.harvard.edu>; freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: tkregister issue with reg-feat2anat
 
Hi, following up on this. The difference I see in the file sent vs previous file is the version line:

Old:

set VERSION = 'reg-feat2anat 7.1.0';


New:

set VERSION = 'reg-feat2anat @FS_VERSION@';


Could this be the issue? Hence the @FS_VERSION@ error in the debug output?

Thanks again,
Erin


From: Walsh, Erin <erin_walsh@med.unc.edu>
Sent: Friday, November 13, 2020 1:45 PM
To: Douglas N. Greve <dgreve@mgh.harvard.edu>; freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: tkregister issue with reg-feat2anat
 
Thanks. I have attached the error output when using the debug option when attempting to run a subject. When I type from the command line (no --feat or --subject options), it is an identical error:

[edub@longleaf-login1 Freesurfer]$ reg-feat2anat --debug

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

: Command not found.

reg-feat2anat @FS_VERSION@

: Command not found.



--
Erin Walsh, Ph.D.
Assistant Professor
University of North Carolina-Chapel Hill
Department of Psychiatry
Chapel Hill, NC 27599-3367
erin_walsh@med.unc.edu
pronouns: she/her

From: Douglas N. Greve <dgreve@mgh.harvard.edu>
Sent: Friday, November 13, 2020 12:01 PM
To: Walsh, Erin <erin_walsh@med.unc.edu>; freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: tkregister issue with reg-feat2anat
 
I'm sure they will. When you re-run it, add --debug as the first argument and capture the entire terminal output to a file (don't try to take a snapshot)

On 11/13/2020 11:50 AM, Walsh, Erin wrote:

        External Email - Use Caution        

Not presently, as I would need to install on my personal computer. I can ask HPC IT to replace the file again and retest to see if things replicate...

Erin


From: Douglas N. Greve <dgreve@mgh.harvard.edu>
Sent: Friday, November 13, 2020 11:48 AM
To: Walsh, Erin <erin_walsh@med.unc.edu>; freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: tkregister issue with reg-feat2anat
 
Can you run it outside of the HCP?

On 11/13/2020 11:27 AM, Walsh, Erin wrote: