From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Wang, Ruopeng <RWANG4@MGH.HARVARD.EDU>
Date: Saturday, 19 February 2022 at 1:28 am
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Freeview problem - can't see surfaces, hidden behind volumes

On Feb 18, 2022, at 1:02 AM, Harriet Dempsey-Jones <h.dempseyjones@uq.edu.au> wrote:

 

        External Email - Use Caution        

Hi there,

 

Thank you for your response!

 

I'm not sure 100% what the answer to this is - I am connecting to the remote machine from a mac (well, two different macs, my home and work macs).

 

I am not sure what the x-term software is. Do you mean the terminal I use inside the remote desktop to open freeview? (see image below) 

 

Thank you,

 

Harriet

 

 

<image.png>

 

Dr Harriet Dempsey-Jones

Postdoctoral Researcher

School of Psychology

The University of Queensland

Brisbane Qld 4072 Australia

 

E  h.dempseyjones@uq.edu.au W uq.edu.au

 

 

<Outlook-yoeliosc.jpg>

 

 

---

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Wang, Ruopeng <RWANG4@MGH.HARVARD.EDU>
Sent: Friday, 18 February 2022 8:25 AM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Freeview problem - can't see surfaces, hidden behind volumes

 

It sounds like a remote display issue. Are you connecting from a Windows machine? If so what x-term software do you use?

 

Ruopeng

On Feb 17, 2022, at 5:15 PM, Harriet Dempsey-Jones <h.dempseyjones@uq.edu.au> wrote:

 

        External Email - Use Caution        

 Hi there,

 

I am having a weird problem with freeview… When l load some volumes and some surfaces together, I can’t see the surfaces because they are hidden ‘behind’ the volumes. They normally sit on top, but now I can only see them if I toggle off the volumes – which is not useful as I need both at once.

 

They are definitely in alignment as I can see them when I toggle, and when I look at old data that I know I could view properly (and surfaces-volumes are in alignment) I have the same issue. I can't move them up, as you can only move position within volumes and surfaces. I tried to attach a video but my email got bounced for being too large - happy to send directly if it is helpful

 

I am using the below code to load things (though have also manually loaded stuff in freeview). The code has not changed since it worked in the past…

 

I have tried searching the freesurfer help, but can’t find anything on my issue… Any help would be appreciated

 

Thanks!

 

Harriet

 

p.s., I am using freesurfer/ freeview on a remote machine of my university. They inform me no updates have been performed

 

 

CODE

 

freeview -v mri/T1.mgz \

                mri/brainmask.mgz \

                mri/wm.mgz:visible=0 \

                -f surf/lh.smoothwm:edgecolor=yellow \

                surf/lh.pial:edgecolor=red \

                -viewport cor -layout 1

 

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

 

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer