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Hi, thought I would try one last time to see if there any ideas for troubleshooting? Not sure what to do at this point to run reg-feat2anat without error. Thanks again.
Erin
________________________________ From: Walsh, Erin erin_walsh@med.unc.edu Sent: Wednesday, November 18, 2020 1:50 PM To: Douglas N. Greve; freesurfer@nmr.mgh.harvard.edu Subject: Re: tkregister issue with reg-feat2anat
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.edumailto:dgreve@mgh.harvard.edu Sent: Friday, November 13, 2020 11:48 AM To: Walsh, Erin erin_walsh@med.unc.edumailto:erin_walsh@med.unc.edu; freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edumailto: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: