Does orig.mgz exist in /usr/local/freesurfer/7.2.0/subjects/home/mri/orig?
Also be aware that we are phasing out register.dat files in favor or using lta files. Also, the tk tools (tkregister2, tkmedit, tksurfer) are officially depricated. Try using tkregisterfv instead.

On 6/28/2022 4:38 PM, Rachel Wagner wrote:

        External Email - Use Caution        

Oh thank you, good catch! I am now encountering the issue below:

 

developer@developer-VirtualBox:~$ tkregister2 --s home --mov updated.mgz --regheader --reg register.dat --surf orig

tkregister_tcl /usr/local/freesurfer/7.2.0/tktools/tkregister2.tcl

surfname set to orig

INFO: no target volume specified, assuming FreeSurfer orig volume.

target  volume orig

movable volume updated.mgz

reg file       register.dat

LoadVol        1

ZeroCRAS       0

$Id: tkregister2.c,v 1.132.2.1 2016/08/02 21:17:29 greve Exp $

Diagnostic Level -1

ERROR: could not find orig as either mgz or COR

/usr/local/freesurfer/7.2.0/subjects/home/mri/orig

 

Could this be another typo on my part or should I be using a different path?

 

Thanks again!

Rachel

 

From: Wighton, Paul
Sent: June 28, 2022 4:36 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Command Not Found

 

You don't often get email from pwighton@mgh.harvard.edu. Learn why this is important

Hi Rachel,

 

Are you trying to run tkregister2?  Looks like you forgot the t at the start of the command.

 

-Paul

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Rachel Wagner <rwagne2@uwo.ca>
Sent: Tuesday, June 28, 2022 4:29 PM
To: freesurfer@nmr.mgh.harvard.edu <Freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Command Not Found

 

        External Email - Use Caution        

Hello,

 

Thank you for your help! I am trying to register my spm image and am getting the following error:

 

developer@developer-VirtualBox:~$ kregister2 --s home --mov updated.mgz --regheader --reg register.dat --surf orig

kregister2: command not found

 

 

Is my path not set correctly?

 

Thanks again,

Rachel Wagner

 

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