Chris,
Unfortunately, v3.0.3 is no longer available for download. As it is,
since you are running on Debian, you probably want to run v3.0.4, as it
fixed a problem found on Debian systems. Results between 3.0.3 and
3.0.4 should be identical, where exceptions are noted in the
ReleaseNotes:
htt
Shabab,
Which Freesurfer Linux distribution was installed, and on what Linux
platform?
Are you running this from the terminal, or remotely? through VNC?
Is the DISPLAY environment variable set to anything? Try unsetting it:
unsetenv DISPLAY
It may be that your graphics driver does not suppo
Glenn,
There is not a problem mixing subjects processed with the 32bit version
and 64bit version, nor between OS type.
The variance of Freesurfer results resulting from the randomness of some
of the algorithms (about 0.01%) is actually greater than the variance of
results between different addres
We are looking at deploying a debian install to all of our linux
machines but need the 3.0.3 version of freesurfer until we can test
3.0.4. Where can we download older versions?
Chris Hamilton
begin:vcard
fn:Christopher L. Hamilton
n:Hamilton;Christopher L.
org:The MIND Institute;Information Te
Hi
I am getting the following error when I run tkmedit or
tksurfer:
Couldn't create output file .xdebug_tkmeditfreeglut
(tkmedit): OpenGL GLX extension not supported by
display ':0.0'
It seems X11 server configuration is not set properly
to run OpenGL applications. Any ideas?
Thanks
Shahab
Yes, you can just set up the contrast as you describe, ie,
mkcontrast-sess -a 1 -a 2 -c 3
will average conditions 1 and 2 and compare the average against 3.
You can recode your par file if you want, but it probably won't make any
difference unless you are using an FIR model.
doug
Cameron
Hi,
I have three conditions specified in my paradigm files that I have been
comparing to one another. Two conditions I would like to combine and
compare to the third in one contrast and was wondering if this would
require modifying my paradigm files to refer to these two conditions with
the same nu
It looks like you have it correct. The docs are admittedly incomplete,
but they are slowly getting updated. One of the things that is changing
is that I'm transitioning away from the isxavg programs to mri_glmfit,
which is much more flexible for doing random group and inter-group
analysis. mr
Hi Kevin,
on machine monkeylove
source /usr/local/freesurfer/nmr-std-env
setenv SUBJECTS_DIR
/space/ship/4/users/Retinotopy_Project/Human_Retinotopy/subjects
cd
/space/ship/4/users/Retinotopy_Project/Human_Retinotopy/Human_Eccen/Katie/MYSTUDY
surf-sess -sf sf.txt -df df.txt -analysis Analysis_
Dear Doug,
Thanks for your reply. As new users, we're having a little trouble
verifying that our processing steps are correct. We're really after two
things. with a third question regarding support materials:
1) Some feedback regarding whether we've completed all the steps necessary
for a glm
Hi,
To add to what Bruce just mentioned, for visualization purposes, in
tksurfer under the View option bar, choose Label Style and select Outline.
This will allow you to visualize where the boundaries of each of the
regions of interest are.
Best,
Rahul
On Wed, 13 Dec 2006, Bruce Fischl wro
Hi
actually each .annot file has a color table embedded in it. The
parcellation value is packed into an rgb value, and stored for each vertex
in the .annot file (r+b<<8+g<<16). There is matlab code to read in the
.annots if you want. To find the outline you just find the set of all
vertices t
Hi,
I asked a question about the parcellation map a couple of days ago. Here
is the question again:
The color table for the parcellation is in stats/aparc.annot.ctab, and
the labels for surface vertices are in label/lh.aparc.annot. How the
vertex vertex label values and the color tables are
Hi Darren,Nick and freesurfers,
Thanks very much for your replies! I've discussed this and have a couple
of questions. I would be very glad if you could help me out.
I'm currently talking with my group to decide where to go. Like I said,
we will get a research-only 3T scanner, which (if used as
Hi,
Is there any problem mixing subjects processed with the 32 bit version
and the 64 bit version, using FS 3.? How about between the RH9 build and
the Centos build?
I would be very surprised if this did present a problem, but my
supervisor wants me to check.
Yes, I did see Nick's email (2
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