[Freesurfer] Feature request (adding origin info to surface files)

2012-11-07 Thread Luke Bloy
Hi all, I'm not sure where the best place to make this request is. so I thought I'll put this here. I often use freesurfer generated surfaces and images in other software packages (Slicer, Matlab etc) for various things. The MGZ files include the origin in the file headers, meaning that

[Freesurfer] freeview

2012-11-07 Thread Catherine Bois
Hi, I am trying to use freeview to look at wm/brainmask etc however the command wont work. The command Im suing is freeview -v wm1_edits_before/mri/wm.mgz:colormap=heat:opacity=0.4 wm1_edits_before/mri/brainmask.mgz \ -f wm1_edits_before/surf/lh.white:edgecolor=blue

Re: [Freesurfer] freeview

2012-11-07 Thread Ruopeng Wang
Hi, Freeview does not look up SUBJECT environment variable. So you will need to cd into your subject directory before running the command, or use the full path in the command for every file. Ruopeng On 11/7/12 9:50 AM, Catherine Bois wrote: Hi, I am trying to use freeview to look at

Re: [Freesurfer] Feature request (adding origin info to surface files)

2012-11-07 Thread Nick Schmansky
Luke, A quick answer (w/o looking into it too much): does: mris_info rh.pial give you the info you need? what i'm not sure of is whether everything you see in that output is available in the structure that the matlab surface reader loads. Nick On Wed, 2012-11-07 at 09:17 -0500, Luke Bloy

Re: [Freesurfer] checking talairach.lta

2012-11-07 Thread Eric Cunningham
i tried replacing this file in tktools with the new tkregister2.bin, and i get a new error: /lib64/tls/libc.so.6: version GLIBC_2.4 not found On Mon, Nov 5, 2012 at 6:06 PM, Douglas Greve gr...@nmr.mgh.harvard.eduwrote: OK, I see the problem. I should have told you to put tkregsiter2.bin