Hi Jason
Try this under tcsh
setenv double_buffer_flag 1
it is known to work for certain platform/freesurfer combos
Krish
On Jun 1, 2010, at 9:15 PM, Bruce Fischl wrote:
> Hi Jason,
>
> have you tried updating the video driver? I think that's the standard
> solution. Nick is traveling so won'
Hi Jason,
have you tried updating the video driver? I think that's the standard
solution. Nick is traveling so won't be able to get back to you for a day
or so if that doesn't work.
Bruce
On Wed, 2 Jun 2010, Jason Connolly wrote:
> Dear Free Surfers,
>
> I'm having a problem I've seen posts ab
Dear Free Surfers,
I'm having a problem I've seen posts about in the archive, but have not been
able to see the solution to it.
If I start tksurfer bert rh pial (as the example says), the display only shows
a small fraction of the brain and nothing more. I've tried some of the
suggestions such
Hi Elizabeth,
your best bet is probably to use mri_label2vol to write the label into a
volume. I think it will take a registration file so you can write it out
in functional coords
cheers
Bruce
On Tue, 1 Jun 2010, Elizabeth O'Hare wrote:
> hello,
>
> i'm trying to take a label that i drew on e
Hey Libby, try using mri_label2vol. It will ask for a template volume
and registration. If you are mapping it to each functional run use
example_func as the template and the register.dat created by
reg-feat2anat as the registration. If you are mapping it to a gfeat of
the combined runs of each subj
hello,
i'm trying to take a label that i drew on each subject's surface into
volumetric space so that i can extract fMRI parameters within this
anatomically defined ROI. i am able to see the label within each
subject's orig.mgz volume with tkmedit. however, i'm not sure how to
convert th
Do you just mean the volume in mm^3 of the caudate, etc? These numbers
are in the aseg.stats files in each subject. You can create a spread
sheet using asegstats2table (including just specifying the segs you
want).
doug
On Tue, 1 Jun 2010, Weisinger, Brian (NIH/OD) [E] wrote:
> Is there any f
Is there any fast way to take out a specific volume from a group of subjects so
as to where I could pull out the caudate and hippocampus volumes for each
person to analyze statistically between groups?
Thank you,
Brian Weisinger
___
Freesurfer mailin
Thanks a lot Nick
Actually a I have already downloaded the file yesterday, but it gives another
error in the same step
when i re-run the recon-all autorecon2, says the version of the centos and FS,
later say "bus error" but continue the recon till it gets to the Subcortical
segmentation, where
mri_ca_label can be downloaded from here:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/misc/linux-centos4_x86_64/
copy it your $FREESURFER_HOME/bin
n.
On Mon, 2010-05-31 at 03:25 -0400, Martin Reuter wrote:
> Yes, looks like the one I fixed. Nick can point you to a download for the
>
can you try adding the flag --debug to make_average_volume? it will
output a lot of stuff, but will pinpoint at which stage it is running
out of memory. also, try running 'top' in another terminal to monitor
the amount of memory it's consuming while running.
as for the license error, that is biz
mri_glmfit-sim can be run in parallel. See the --help. Also, I've run a
big batch of simulations and put the results here
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mult-comp-cor.tar.gz
this is for whole hemisphere on fsaverage. If that is what you are
doing, then it should b
you can also use the little-known -avgcurvtifpath and -avgcurvtif flags
to specify your own tiff. But you need to make sure to spec them each
time you run it.
doug
Bruce Fischl wrote:
> Hi Danny,
>
> you're probably better off just editing the recon-all script to change
> the names of these fi
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