Thank you all for your quick response!
I think I just used the wrong distribution - I will try again with the right
one.
Miguel
On Tue, Jan 12, 2010 at 11:08 PM, Nick Schmansky
wrote:
> is your system 32b or 64b? make sure the correct freesurfer
> distribution (32b or 64b) was installed.
>
> n
check the talairach.xfm transform and see if it is accurate.
cheers
Bruce
On Tue, 12 Jan
2010, Xiantong Zhen wrote:
Hi experts,
I run freesurfer to compute the thickness, but I find some subjects failed with
error.
Would you please tell me how to handle this error. Thank you very much!
And
FYI, that was the problem. Installing the right distribution solved the
problem --thanks!
Miguel
On Wed, Jan 13, 2010 at 12:01 PM, Miguel Burgaleta <
miguel.burgaleta@gmail.com> wrote:
> Thank you all for your quick response!
> I think I just used the wrong distribution - I will try again wi
Hi again,
I am experiencing some problems when testing my freesurfer installation in
Ubuntu 9.04. When I run tkmedit and tkmsurfer the interface opens OK, but
the volume display window behave in a weird manner in both cases: it appears
but quickly disappears. In tkmedit, if I click on some of the
Hi Miguel,
make sure your video driver is up to date. Are there any error messages
in the console?
Bruce
On Wed, 13 Jan 2010, Miguel Burgaleta wrote:
> Hi again,
>
> I am experiencing some problems when testing my freesurfer installation in
> Ubuntu 9.04. When I run tkmedit and tkmsurfer the int
Hi Miguel,
As Bruce said, the best thing to do is to make sure you have enabled "Hardware
Drivers" for your video card and make sure they are up-to-date. However, if
you do not have a video card with the appropriate level of OpenGL support for
an application (e.g., if you are running in a VM)
Thanks Bruce + Daniel.
I get no error messages in the terminal when running tkmedit/tkmsurfer.
Drivers are enabled and up-to-date, and other similar software is working OK
(for instance, fslview).
However, I have installed freesurfer in another computer with an nvidia
video card and tkmedit looks
Hi Doug:
Yes... I think that I could change the palette with your methods for
tkmedit and tksurfer respectively... But, the image that I want to load
as an overlay has 116x116x50 and I corregistered to tksurfer main
volume, and I could load in tkmedit as an overlay specifing the
register.d
Hi:
I have freesurfer 4.4.0...
Sincerely,
--
Gonzalo Rojas Costa
Department of Radiology
Las Condes Clinic
Lo Fontecilla 441, Las Condes, Santiago, Chile.
Tel: 56-2-2105170
Cel: 56-9-97771785
www.clc.cl
___
Freesurfer mailing list
Freesurfer@nm
Hi:
I load orig.mgz using freeview application, but when I try to load
lh.thickness or rh.thickness file, freeview quits unexpectedly... it is
a freeview bug ?...
Sincerely,
--
Gonzalo Rojas Costa
Department of Radiology
Las Condes Clinic
Lo Fontecilla 441, Las Condes, Santiago, Chile.
for the Mac OS users out there:
who still needs a Tiger OS build of freesurfer? and on what processor
(intel or ppc)?
i'd like to discontinue support for Tiger (and redirect efforts toward
working with Snow Leopard), but if enough people still need the Tiger
build then we can keep our creaky-old
What command did you run?
On 01/13/2010 02:43 PM, Gonzalo Rojas wrote:
> Hi:
>
> I load orig.mgz using freeview application, but when I try to load
> lh.thickness or rh.thickness file, freeview quits unexpectedly... it is
> a freeview bug ?...
>
> Sincerely,
>
>
>
Hi:
I load orig.mgz using "Load Volume" command, and I tried to download
lh.thickness and rh.thickness using "Load Surface" in "freeview"
application...
Sincerely,
Gonzalo Rojas Costa
Department of Radiology
Las Condes Clinic
Lo Fontecilla 441, Las Condes, Santiago, Chile.
Tel: 56-2-210
You should select a surface file to load first, such as lh.white. Then
from the control panel on the left, load lh.thickness as Overlay. You
can load everything from command-line at once:
freeview -v orig.mgz -f lh.white:overlay=lh.thickness
Best,
Ruopeng
On 01/13/2010 03:01 PM, Gonzalo Rojas
Hi,
I am using FreeSurfer 4.5, on a 64-bit Dell Precision workstation. The
OS is Centos 5.4.
I cannot input anything in tkmedit using my keyboard. I can only input
curvature file names in tksurfer, but not overlay file names and
threshold values. I searched the mailing archives, same thing hap
i forgot to mention, 'Tiger' is OS v 10.4, where you can get your
version number by clicking the blue apple in the upper left-hand corner
and then 'About this Mac'.
n.
On Wed, 2010-01-13 at 14:51 -0500, Nick Schmansky wrote:
> for the Mac OS users out there:
>
> who still needs a Tiger OS build
sorry i'm not sure what to suggest. we have dell precision 64bit
machines here at our center running centos 5.4 which do not have a
problem with keyboard entry in either tkmedit or tksurfer (i just
double-checked).
is there something in your environment (added by your .cshrc or .bashrc)
which is o
Hello,
I was just wondering if there was a way in mri_convert to conform a
MRI scan so that the output file is 16-bit?
The reason I ask is that I am trying to create dual pipelines. One
pipe for Freesurfer and the other pipe for SPM and it would be nice to
use mri_convert to generate the data for
Yes, you can use --out_data_type int
Brain Apprentice wrote:
> Hello,
>
> I was just wondering if there was a way in mri_convert to conform a
> MRI scan so that the output file is 16-bit?
>
> The reason I ask is that I am trying to create dual pipelines. One
> pipe for Freesurfer and the other pi
Hi freesurfers,
I'm trying to run an estimation with my last subject and get stuck with a
ERROR: design is ill-conditioned
I can imagine this means that my design misses something bu I can't find
what. Conditions all have events in all runs, time points are equally
spaced.
Here's the log of the se
The problem is with your tpexclude file in the 2nd run. It looks like this:
9.01604
10.7159
12.5158
220.503
331.012
354.511
356.61
This is probably not what you want to do. The tp exclude file is to
exclude certain time points, so the times should be integer multiples of
the TR. In this case th
Hi BA,
you can specify -odt short and it will be 16 bits/voxel, but by
definition it won't be conformed (which means 8 bits/voxel among other
things)
cheers
Bruce
On Wed, 13 Jan 2010, Brain Apprentice wrote:
> Hello,
>
> I was just wondering if there was a way in mri_convert to conform a
> MRI
Hi Nick,
I'm using Freesurfer on different Macs, of which one with Tiger OS and
ppc.
So, I kindly ask you to continue support for Tiger OS and ppc for at
least
this year.
Ed
On 13 Jan 2010, at 23:14, freesurfer-requ...@nmr.mgh.harvard.edu wrote:
>
> for the Mac OS users out there:
>
> who s
23 matches
Mail list logo
