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Thank you for the help. It was my bad, I should have changed the Display
port to 1.
$ export DISPLAY="172.23.144.1:1"
Best,
Mahdi
On Mon, 6 Nov 2023 at 22:31, fsbuild wrote:
> Hello Mahdi,
>
> If you have not already done so, you might want to look
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Hello Mahdi,
If you have not already done so, you might want to look at the Freesurfer wiki
notes about setting up an X-server on Windows so linux applications running in
WSL can display graphics using
X-windows, https://secure-web.cisco.com/1IeFJcA
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Thanks for the reply.
Yes, glxgears command shows a blank window. I thought about it but
couldn't find any solution. I'm working on WSL2.
Best,
Mahdi
On Mon, 6 Nov 2023 at 13:16, Wang, Ruopeng wrote:
> It sounds like an openGL rendering issue. If yo
It sounds like an openGL rendering issue. If you run glxgears command, do you
see a blank window or spinning 3D gears?
Ruopeng
On Nov 6, 2023, at 12:37 PM, Mahdi Babaei
mailto:mahdibabai...@gmail.com>> wrote:
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Hi Paul,
Thank you for your response. There w
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Hi Paul,
Thank you for your response. There was an issue with my description. I
meant to refer to volume data. Freeview is displaying a black view, even
though it loads the images. Unfortunately, nothing is visible.
Best,
Mahdi
On Mon, 6 Nov 2023 at
Hi Mahdi,
I'm afraid I don't know what you mean by "Freeview opens fine but when I load a
column in it just shows a black view." What is a column in this context?
As for registration between PET and MR, have you seen this page?
https://surfer.nmr.mgh.harvard.edu/fswiki/PetSurfer
It suggests us
FS does not warp any images. No smoothing is ever applied.
On 11/7/2022 3:30 PM, Katrina Simon wrote:
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Hi, I have a dataset i have run with the default settings of
Freesurfer 6.0. A reviewer for a paper recently raised the question
"Were T1 images warped w
I don't know about using R. In FreeSurfer you can run asegstats2table
(for aseg.stats) or aparcstats2table (for aparc.stats). Run with -h to
get help or look at our tutorials
On 9/2/2021 7:26 AM, hyeyoung park wrote:
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Hi,
This is hyeyoung Park from Seoul N
Hi Dorsa
as I said, if you rerun don't include the -i. And please include the full
command and output pasted into the email
thanks
Bruce
On Tue, 28 Jun 2016, Dorsa Haji Ghaffari wrote:
Hi,
Thanks for the help. I ran the following code and I got errors. I have
attached the log.
recon-all
Hi Dorsa
can you just copy and paste the text into the email? It's much easier
than trying to look at images of text.
Your recon-all command finished successfully. Essentially you didn't tell
it to do anything except import the data and create the subject dir.
Typically you want to give the
Hi Dorsa
you need to give us more information that that if you want us to help you.
Send us the full command line you ran and the full screen output and log
files for starters.
cheers
Bruce
On Tue, 28 Jun 2016, Dorsa Haji Ghaffari wrote:
Thank you! When I recon-all my files, I get the foll
Thank you! When I recon-all my files, I get the following error:
files are not found to be different and cannot be sorted
Do you have any suggestions?
Thank you
Dorsa
On Tue, Jun 28, 2016 at 12:57 PM, Bruce Fischl
wrote:
> just give recon-all a single slice from the series with -i name>. I
just give recon-all a single slice from the series with -i . It will figure out
the rest of them
On Tue, 28 Jun 2016, Dorsa Haji Ghaffari wrote:
> Hi,
> I am a little confused about how should I save my files to execute recon-all
> on
> them. I have 240 slices of dicom format and I put them in
Hi,
I am a little confused about how should I save my files to execute
recon-all on them. I have 240 slices of dicom format and I put them in a
folder in my subjects_dir. but I get errors when using recon-all on the
folder containing the MRIs. Can you help me with that? I really appreciate
your he
Hi,
I need patient specific brain models created by warping atlases to
individual MRIs. I want the model to include the Subthalamic Nucleus, Gpi,
Thalamus and their surrounding organs. (Cortical segmentation is not
necessary). When I use the" recon all "command on one MRI image, I get the
error "c
Hi Dorsa
what specific models do you need? The 10-20 hours is to process the data
from a single subject at a single timepoint. If you check out our wiki
(http://surfer.nmr.mgh.harvard.edu/fswiki) there are lots of tutorials and
sample datasets and such
cheers
Bruce
On Mon, 27 Jun 2016, Dorsa
Hi,
I am graduate student at the University of Michigan and I am performing
research on deep brain stimulation. I want to warp an anatomical brain
atlas to individual patient MRIs to get the patient specific brain models
out of it. I chose FreeSurfer to do this and I have installed it on my
comput
Hi Kourosh,
you can ask the freesurfer list for these kind of questions. I believe that
the ras coordinates are not changed, so reslicing everyhting as the original
inputs will be sufficient (no transform, only based on the header
information)
e.g.
mri_convert -rt nearest -rl youroriginialinput
I don't know why they would care, but we can't say for sure
On Wed, 16 Jul
2008, Pedro Paulo de Magalhães Oliveira Junior wrote:
Hi,
Some time ago I have asked a question similar to this and the answer was a
page with a template:
http://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferMethodsCitat
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