Thank you.
When I run 'xdpyino | grep GL' it says "xdpyino: Command not found" (this is in the tcsh shell)
I am running it on VMware Player version 2.0.2 and using the FSL_vm5_32 virtual machine from the FSL website. If this helps and you can give me further instructions, I would greatly appreciate it. Otherwise, thank you for the help that you have already given.
--sarah
-----Original Message----- From: Paul Raines [mailto:raines@nmr.mgh.harvard.edu] Sent: Wednesday, November 28, 2007 10:27 AM To: Sarah Andersen Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] problem viewing in tksurfer
Your X server on your virtual Linux image does not appear to have GLX support. If you run 'xdpyino | grep GL' do you see GLX listed?
If not, I am not sure what to say as I don't know what virtual machine program you are using. But you need to read up in its docs about how to properly install a X11 video driver for it.
On Wed, 28 Nov 2007, Sarah Andersen wrote:
Dear FreeSurfers,
I am having a problem viewing in tksurfer: I can only see a sliver of the brain. This sliver will rotate and do everything that tksurfer is supposed to do, but I can't view any more of the brain than a tiny piece of the occipital lobe. I have tried this with several different files, and had
the
same issue for each of them. Tkmedit, on the other hand, works fine.
I am using FreeSurfer stable release v4.0.1 on Windows Vista using a virtual machine.
FREESURFER_HOME: /usr/local/freesurfer
Build stamp: freesurfer-Linux-centos4-stable-pub-v4.0.1
RedHat release: CentOS release 5 (Final)
Kernel info: Linux 2.6.18-8.1.15.el5 i686
I am working through the on-line tutorial and followed the directions to
set
my environment to /buckner_data/tutorial_subjs I also set SUBJECTS_DIR to $TUTORIAL_DATA . I am working in $SUBJECTS_DIR. The "which" command gives
me
/usr/local/freesurfer/bin/tksurfer
I ran the command "tksurfer good_output lh inflated". The following is
the
resulting message.
surfer: current subjects dir:
/usr/local/freesurfer/subjects/freesurfer_tutorial/buckner_data/tutorial_sub
js
surfer: not in "scripts" dir ==> using cwd for session root
surfer: session root data dir ($session) set to:
surfer:
/usr/local/freesurfer/subjects/freesurfer_tutorial/buckner_data/tutorial_sub
js
surfer: Reading header info from
/usr/local/freesurfer/subjects/freesurfer_tutorial/buckner_data/tutorial_sub
js/good_output/mri/T1.mgz
surfer: vertices=125352, faces=250700
Loading /usr/local/freesurfer/surface_labels.txt
surfer: ### redraw failed: no gl window open
surfer: single buffered window
surfer: using interface /usr/local/freesurfer/lib/tcl/tksurfer.tcl
Reading /usr/local/freesurfer/lib/tcl/tkm_common.tcl
Reading /usr/local/freesurfer/lib/tcl/tkm_wrappers.tcl
Reading /usr/local/freesurfer/lib/tcl/fsgdfPlot.tcl
Reading /usr/local/freesurfer/lib/tcl/tkUtils.tcl
Successfully parsed tksurfer.tcl
reading white matter vertex locations...
In the email archives I have seen a response that mentioned the NVidia graphics card. I checked and my machine does have an NVidia graphics card.
Thanks in advance for the help!
Sarah
Sarah Andersen
Research Specialist
Dept. of Neurology
Dept. of Speech, Language, and Hearing Sciences
(520) 621-9878
sander@email.arizona.edu