I ran the command recon-all -all -s t2 -i t1x.mnc as Bruce suggested
and the process took off but has been running for more than 6 hours and
seems to be not doing anything after the step which reads MRISunfold()
max_passes = 1 ---
it has a few steps after that, but doesn't say that it c
nope, keep waiting. Depending on your hardware and how different the
anatomy is from normal it can take up to a day.
as for LGI, check recon-all -help
cheers
Bruce
On Sun, 24 Jan 2016, Ankita
Chatterjee wrote:
I ran the command recon-all -all -s t2 -i t1x.mnc as Bruce suggested and
the p
Hi Bruce (and the freesurfer community),
Thanks for your reply! Would it be possible to get more details on the process
of how I might go about correcting these volumes myself? It would be ideal if I
had the volumes prior to entering it into my statistical model (and thus I’d
prefer not to use
Dear experts,
I installed FreeSurfer on Ubuntu with these commands:
sudo apt-get install tcsh
cd /usr/local/
sudo tar -xzvf ~/freesurfer-*.tar.gz
echo "FREESURFER_HOME=/usr/local/freesurfer" >> ~/.bashrc
echo 'source $FREESURFER_HOME/SetUpFreeSurfer.sh' >> ~/.bashrc
sudo gedit /usr/local/freesurf
Hi Will
can you take the same images with freeview and send them along? Also:
tell us a bit about your images. What format did they start in? Were they
dicoms?
Bruce
On Mon, 25 Jan 2016, will brown wrote:
> Hi all,
> After attempting recon-all I received the error "mritotal failed, see
> tran
Hello Freesurfer,
I am trying to learn freesurfer and ran into the following issues below
running the recon -all command.
FREESURFER_HOME: /Applications/freesurfer
Build stamp: freesurfer-Darwin-lion-stable-pub-v5.3.0
Kernel info: Darwin 14.5.0 x86_64
1)
joya
2)
Jasmins-MacBook-Pro:subj
Thank you for your help! The process took 22 hours, but it completed
without errors! Now I will start looking at the output to analyze.
I was wondering if it is possible to run 3-4 of the freesurfer processes
like recon-all simultaneously? I will be running these on a Mac with 8 Ghz
of Memory and
Hi Ankita
Glad it worked :) How many cores do you have? If only 1 there is nothing to be
gained by running them in parallel. If more than 1 I think you should be able
to fit at least two in that much ram, but perhaps someone else can comment?
Maybe 3?
Cheers
Bruce
> On Jan 24, 2016, at 10:55 P
