Re: [Freesurfer] Freeview problem - can't see surfaces, hidden behind volumes

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

[cid:94e53025-671d-44fb-916a-1586a218dd14]

Dr Harriet Dempsey-Jones

Postdoctoral Researcher

School of Psychology

The University of Queensland

Brisbane Qld 4072 Australia

E h.dempseyjones@uq.edu.aumailto:h.dempseyjones@uq.edu.au W uq.edu.auhttp://secure-web.cisco.com/1g0mnyf7Mh5mlYyGV5FOnPmMxbqxAL20rRleOF-_ytgqGNG3HgzFcSZM9S-PhyvJTsDcJtkbt5UCtI1slB22dhxaoHwz6EcU_nqwJUpL9NK3ekqPIeRKJPflpVl7JSpafLxkz0HmbVpqja_n-wwaz1-WEz0qMP3WQhszo1AsJBCwj1uCcROh3VljV_jePxtEOQXO9QtPhFnUx2h1QaQAqReC1ZcstRtYySPVFL9HTgKoLutYRwl4gDrH2xk6ZIMLcseFhoI5IsUt8vnaxsIkWJZyLFFzvvgYfASQFEZuHR1nFMbQAMyQ8tmZX0zWApafsLcfGxuo7xe421XP5W7YzmA/http%3A%2F%2Fwww.uq.edu.au%2F

[cid:dd420d9d-9395-40fa-b225-3362183cfdc8]

________________________________ 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.aumailto: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.edumailto:Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/1V_UMb9QcgGObRM53sU8GZmXY-nAeO6X4ms1XnA53o62Eaz...