I had this same problem running on a cluster, if you can get your
sysadmin to install:
libXScrnSaver
It should fix it.
Good luck,
-Sam
On 13/12/2009 2:32 PM, Nick Schmansky wrote:
i'm guessing from the 'compute-0-1.local' bit of your output that this
was run on cluster, which probably doesnt
Hi,
I'm getting an error trying to run a reconstruction.
I'm working on multnomah and my subjects directory
is: /autofs/space/multnomah_002/users/Cashlab/
*I'm using the following command:*
[multnomah:Cashlab] (nmr-std-env) recon-all -autorecon1 -autorecon2 -subject
MG15_SurferOutput -i
Can you send the reg-feat2anat log file?
doug
Xinian Zuo wrote:
Hi FSers,
I am new to freesurfer. now start to use it for looking at struc-func
relationship. Normally, in fsl, I employ bet for both example_func and
highresh anat. it means that the func_brain and anat_brain are fed
into
Hi Rodrigo, first check the talairach registration to see whether it
really failed or not -- the automatic checker is often a bit
conservative. If it did, then you can fix it by hand. If it did not,
then you can re-run recon-all with -notal-check.
doug
Rodrigo Zepeda wrote:
Hi,
I'm getting
Though the pial surface and wm surface follow expected course, there are
some regions that are misclassified when the colortable is overlaid. Please
see the example below... Should I worry?
Thanks in anticipation
LKP
___
Lena Palaniyappan
no, that's just an (expected) mismatch between the surface-based and
volume-based analyses
On Mon, 14 Dec 2009, Lena Palaniyappan wrote:
Though the pial surface and wm surface follow expected course, there are
some regions that are misclassified when the colortable is overlaid. Please
see the
Dear experts,
I was able to coax out a little bit more information on the nature of the
error that I am encountering in func2roi-sess.
Looking at the last line of the log (final 25 or so lines of the log are
pasted below), it seems that the program is looking for bold/007/fmcsm8, but
actually
Ok - I believe I figured out the problem, but I wanted to post it to the
list, so that anyone else who encounters this error can hopefully spend less
time than I did tracking down the culprit!
Essentially, a break was being passed inappropriately to the mri_vol2roi
subroutine called by
I am trying to use qdec but it gave me this error. I don’t understand what is
wrong because it read the diagnosis factor level of COS NV but then says
subject 00308 has invalid level of COS in diagnosis column.
Any ideas?
CHP-MP2:freesurfer brianweisinger$ qdec
[1] 7902
CHP-MP2:freesurfer
Hi there,
I moved my data to a new computer with Freesurfer installed.
When i run the SetUpFreeSurfer.csh (or .sh for that matter) i get a strange
configuration:
Setting up environment for FreeSurfer/FS-FAST (and FSL)
FREESURFER_HOME /usr/local/freesurfer/
FSFAST_HOME
Hello -
We are planning to use freesurfer in a study of 2-5year olds; I
understand from previous posts that image intensity should be ok at this
age range, but was wondering whether there are issues related to scaling
or parcellation such that it would still be optimal to use a pediatric
Hi, there,
Does anyone can give me link or paper which explains all the QDEC output file,
such as F.mgh, gamma.mgh, beta.mgh ...
What are they, how are they related?
Thanks a lot!
Guang
Hi Ilana
The double slashes shouldn't matter. What does it say when you give
tkmedit bert brainmask.mgz
in the freesurfer environment ( i.e. after you run SetUpFreeSurfer.csh )
Krish
On 12/14/09 5:27 PM, Ilana Hairston wrote:
Hi there,
I moved my data to a new computer with Freesurfer
Hello, Doug,
Thanks a lot! I got most of them from the mri_glmfit --help except one, which
is maxvox.dat.
Is it a way to load this file in tksurfer?
Thanks a lot!
Guang
Date: Mon, 14 Dec 2009 18:35:39 -0500
From: gr...@nmr.mgh.harvard.edu
To: freesurfer...@hotmail.com
CC:
Hi Rhoshel,
we haven't looked at ton at that age range, but from 5-10 we've found no
need for special scaling or any age effect in registration/parcellation.
cheers,
Bruce
On Tue, 15 Dec 2009, Rhoshel Lenroot wrote:
Hello -
We are planning to use freesurfer in a study of 2-5year olds; I
The maxvox.dat is just a text file that stores the voxel with the
largest value. Not too useful.
doug
Guang Zeng wrote:
Hello, Doug,
Thanks a lot! I got most of them from the mri_glmfit --help except
one, which is maxvox.dat.
Is it a way to load this file in tksurfer?
Thanks a lot!
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