Greetings from St. Louis. I recently installed Freesurfer version 4.5
on my Windows XP OS PC after attending your training course held at our
institution, Washington University. The install went fine, and I was
able to make it through all the checks in your setup and installation
series on your
Hi Freesurfers,
I heard about tools for segmenting wm hypotensities from multi-spectral
data. We have various sequences (T1, T2 and Flair) from a group of
patients and controls and would be interested in looking at
hypointensities. So I was wondering if these tools are accessible
somewhere.
Hello Freesurfers,
I am in the process of unpacking scan data, but am having problems
with the spmregister-sess command. I ran recon-all and preproc-sess
to completion without error. However, when I run spmregister-sess -s
FB0011090BB, I receive the following error:ERROR: matlab
exited
Dear Freesurfer experts,
one of my recent recon-all processes exited with errors as seen here
mri_ca_label GCA sequential renormalization: label 28 not consistently computed.
not using caudate to estimate GM means
setting label Right_VentralDC based on Left_VentralDC = 1.15 x + 0
estimating
Hi Philip,
what version were you running? I think Martin Reuter fixed this bug.
cheers
Bruce
On Mon, 26 Jul 2010, York, Philip wrote:
Dear Freesurfer experts,
one of my recent recon-all processes exited with errors as seen here
mri_ca_label GCA sequential renormalization: label 28 not
Hi Adam, I don't know why you are receiving this now. Your startup.m
file is not properly configured, so I'm surprised it ever ran correctly
for you at all.
Try adding this line at the end of it
path(path,'/usr/pubsw/common/spm/spm5');
doug
Adam Nitenson wrote:
Hello Freesurfers,
I am
Hi everyone,
We are currently running version 4.2 and will be updating to version 4.5. I
have about 60 brains that went through reconstruction with 4.2 and was
wondering if the reconstructions/data will be affected at all by updating to
4.5? Will I need to re-run part of recon-all in order to use
Hi Jesse,
we always recommend reprocessing your data after an upgrade. We try very
hard to retain any manual interventions you may have taken, so it should
just be compute time. Sorry :
cheers
Bruce
On Mon, 26 Jul 2010, Jesse Bledsoe wrote:
Hi everyone,
We are currently running version
you should also be aware that we are close to releasing version 5, so
you might want to wait to do your re-analysis
Bruce Fischl wrote:
Hi Jesse,
we always recommend reprocessing your data after an upgrade. We try very
hard to retain any manual interventions you may have taken, so it should
Thank you for the quick reply, as always. In that case I may have to stick
with version 4.2 for these analyses as this is my dissertation data. I'll
definitely upgrade when 5.0 comes out and then recon-all of my data.
Take care,
Jesse
On Mon, Jul 26, 2010 at 2:19 PM, Douglas N Greve
Hi Freesurfer experts,
Thanks for Jesse's recent posting which raises my question. I am in
the process of compiling a series of control patients with freesurfer
version 4.5. Is it possible to save the output after autorecon1( with
version 4.5), and use it to continue autorecon2 when
I am having a problem others have had before, but that I can't seem to see
any resolution to in the archives. When I open tksurfer I can't use my
keyboard to input anything. I don't get any errors, it just doesn't let me
type or delete anything, making it next to impossible to use.
I'm running
Hi Katie,
do you see any errors in the window that you typed the tksurfer command?
Bruce
On
Mon, 26 Jul 2010, Katie Bettencourt wrote:
I am having a problem others have had before, but that I can't seem to see
any resolution to in the archives. When I open tksurfer I can't use my
keyboard
Hi Toh,
if you did manual skull stripping within FS we will retain your edits when
you reapply the latest version.
cheers
Bruce
On Tue, 27 Jul 2010, Toh Hock Wong wrote:
Hi Freesurfer experts,
Thanks for Jesse's recent posting which raises my question. I am in
the process of compiling a
Hello,
I was wondering if there was a list xyz coordinates for all 70 regions
generated in the cortical parcellation atlas.
Thanks for your help,
Olu Ajilore, MD, PhD
Assistant Professor
Department of Psychiatry
University of Illinois-Chicago
oajil...@psych.uic.edu
If you run mri_annotation2label, you can create a .label file for each
region. This label file will have a list of xyz of each vertex.
doug
Ajilore, Olusola wrote:
Hello,
I was wondering if there was a list xyz coordinates for all 70 regions
generated in the cortical parcellation atlas.
I am running v4.5.0
On Jul 26, 2010, at 8:49 AM, Bruce Fischl wrote:
Hi Philip,
what version were you running? I think Martin Reuter fixed this bug.
cheers
Bruce
On Mon, 26 Jul 2010, York, Philip wrote:
Dear Freesurfer experts,
one of my recent recon-all processes exited with
Hi:
How can I get more thinner parcelation borders ?... Or could I specify a
transparency factor ?...
Sincerely,
Gonzalo Rojas Costa
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what does the error message in the terminal say?
n.
On Mon, 2010-07-26 at 17:01 -0400, aekai...@umich.edu wrote:
Hello FS experts,
I have attached a gimped image of an error I have encountered.
it seems to only occur when I choose diagnosis as a discrete variable.
however I made the
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