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

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 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

 

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