Sure!
Do you want the T1, or also the mri_cvs_register outputs?
btw, I'm in the martinos, so you can access all my files (I wrote the full path) 

Many thanks,
Noam

p.s I'm using two different computers, one of them isn't in the center, and the freesurfer's version is
freesurfer-linux-centos6_x86_64-dev-20180622-7758bad
(hmmm, should I be worried it ends with 'bad'?)
Can it cause these kinds of problems?


From: Lilla Zollei <lzollei@nmr.mgh.harvard.edu>
Sent: Thursday, February 7, 2019 2:04 PM
To: Peled, Noam
Cc: Freesurfer support list
Subject: Re: [Freesurfer] applyMorph gives (10000 10000 10000) coordinates
 

Hi Noam, Would it be possible fo ryou to upload a sample data set to our
filesharing site?
https://gate.nmr.mgh.harvard.edu/filedrop2/
Lilla

On Thu, 7 Feb 2019, Peled, Noam wrote:

> Hey Lila,
> Sorry for the confusion, the attached file is the terminal output.
> Please find also the applyMorph output file.
>
> Thanks,
> Noam
>
> __________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________
> From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Lilla Zollei <lzollei@nmr.mgh.harvard.edu>
> Sent: Thursday, February 7, 2019 10:31 AM
> To: Freesurfer support list
> Subject: Re: [Freesurfer] applyMorph gives (10000 10000 10000) coordinates  
>
> Hi Noam,
>
> Maybe a I am a bit confused but in the attached file I do not see the
> (10000 10000 10000) coordinate that correspond to invalid coordinate
> locations. Is the file that you attached your
> electrodes_morph_to_colin27.txt or is it the terminal output?
>
> Lilla
>
> On Thu, 7 Feb 2019, Peled, Noam wrote:
>
> > Hey all,
> > I'm trying to morph patients' invasive electrodes into a template brain. 
> > I'm not sure why, but sometimes, the applyMorph gives me the (10000 10000 10000) coordinates for a subset of the electrodes, where the rest are ok.
> > In the output, for those electrodes I can see it writes "not valid", but still gives reasonable coordinates and not (10000 10000 10000) 
> > For example:
> >
> > applyMorph --template /autofs/space/thibault_001/users/npeled/subjects/colin27/mri/orig.mgz --transform /autofs/space/thibault_001/users/npeled/subjects/MG106/mri_cvs_register_to_colin27/combined_tocolin27_elreg_afteraseg-norm.tm3d point_list
> > /autofs/space/thibault_001/users/npeled/subjects/MG106/electrodes/electrodes_to_morph.txt /autofs/space/thibault_001/users/npeled/mmvt/MG106/electrodes/electrodes_morph_to_colin27.txt a
> >
> > Where in the output file you can see the (10000 10000 10000)  coordinates. 
> > I attached the applyMorph output.
> > btw, I'm using the Freesurfer dev version
> >
> > Thanks,
> > Noam
> >
> > 
> > LZ
> >
> >
> >
> >
>
>