Hi,
how can I tell mris_expand to expand the surface by a fixed distance
rather than by a fraction of the thickness?
Thanks,
Lars
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HI!
i have a question regarding multiple comparion correction in qdec. can i use a
clusterwise correction?
i found the following script for glm:
mri_glmfit-sim \
--glmdir lh.gender_age.glmdir \
--sim mc-z 5 4 mc-z.negative \
--sim-sign neg \
--overwrite
but i dont understand how i shoul
Hi Lars,
that is what it does by default, unless you give it the -thickness flag.
cheers,
Bruce
On
Fri, 24 Jul 2009, Lars Tjelta Westlye wrote:
> Hi,
>
> how can I tell mris_expand to expand the surface by a fixed distance
> rather than by a fraction of the thickness?
>
> Thanks,
> Lars
>
> ___
Perfect, thanks. I'm also trying to display a surface at a fixed distance
into the WM relative to the white surface.
mris_expand lh.white -1 lh.wm1mm
does not seem to do what I want. Is what I'm trying to do feasible with
mris_expand or would you suggest another tool?
> Hi Lars,
>
> that is wha
Hi Lars,
I recently fixed mris_expand to take negative distances. If you send us
your hardware/software platform we'll send you a dev version
Bruce
On Fri, 24 Jul 2009, Lars Tjelta Westlye wrote:
> Perfect, thanks. I'm also trying to display a surface at a fixed distance
> into the WM relative
Here you go:
Build stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v4.4.0
RedHat release: Red Hat Enterprise Linux Client release 5.3 (Tikanga)
Kernel info: Linux 2.6.18-128.1.6.el5 x86_64
Thanks a lot!
> Hi Lars,
>
> I recently fixed mris_expand to take negative distances. If you send us
Dear Pedro Paulo:
I got the following error when I processing the autorecon2 stage...
" 4281 Left-non-WM-hypointensities 0
4382 Right-non-WM-hypointensities 0
4485 Optic-Chiasm 187 187
45 251 CC_Posterior 540 540
46 252 CC_Mid_Posterior 182 182
47 253 CC_Cen
Hi
On Ubuntu, you will need to do the following:
cd /usr/lib
sudo ln -s libtiff.so.4 libtiff.so.3
( from http://surfer.nmr.mgh.harvard.edu/fswiki/Download )
The second command only works if you have write access to /usr/lib..
otherwise you could contact your sysadmin.
Krish
On Jul 24, 2009, a
Hi:
But the sysadmin forgot the password of the superuser... I created the link
in the /home/image directory, and in /home/image/freesurfer/bin, but
freesurfer didn't find the lib... How can I solve the problem... How can I
specify to freesurfer that the lib is in another folder ?... Any idea ?.
I believe the following might work
- create a symbolic link to libtiff.so.4 in your home directory like
cd /home/image/freesurfer/lib/
ln -s /usr/lib/libtiff.so.4 libtiff.so.3
- add this to your LD_LIBRARY_PATH.. first you need to check your
LD_LIBRARY_PATH is already defined.
echo $LD_LIBRAR
I think if he forgot the root password there's no way to do this
---
Pedro Paulo de M. Oliveira Junior
Diretor de Operações
Netfilter & SpeedComm Telecom
--- Novo Netfilter 3.0 www.Netfilter.com.br
--- Em breve Netfilter Small Business
2009
Hi Jidan,
It sounds to me that what you're asking is whether it is possible to
invert the "mapping" from {lh,rh}.white to {lh,rh}.sphere, but apply
that inversion to {lh,rh}.sphere.reg, thus generating a putative
"{lh,rh}.white.reg" surface. I'm not sure that operation is possible,
or if the resu
Hi Jidan
Lilla Zollei (ccd) has worked on some tools that we just published in IEEE
TMI for applying the surface warp to an entire volume. I guess you could
just warp the surface through forward and inverse transforms, but the
transformed source will be guaranteed to lie within the target surf
dev mris_expand found at:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/fixes/linux-centos4_x86_64/
On Fri, 2009-07-24 at 14:53 +0200, Lars Tjelta Westlye wrote:
> Here you go:
>
> Build stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v4.4.0
>
> RedHat release: Red Hat Enterprise Linu
Rosa,
If you have the newest version of qdec, it has a button to generate the
mri_glmfit-sim script for you, with the proper directory input and
output generated for you.
You'll still have to load the results on your own in tksurfer by
following these instructions:
http://surfer.nmr.mgh.harvard.
Prapti,
To save results in another directory:
setenv QDEC_WORKING_DIR some/pathname
then run qdec.
Nick
On Thu, 2009-07-23 at 12:19 -0400, Douglas N Greve wrote:
>
> Prapti Gautam wrote:
> > Dear freesurfers,
> >
> > I have a few additional questions regarding qdec.
> >
> > 1. Is it possib
Pernille,
My mistake, v4.4.0 still makes use of randomness. The next version, to
be released in a couple weeks, with have -norandomness by default. The
ReleaseNotes page has been updated.
Nick
On Thu, 2009-07-23 at 09:52 +0200, Pernille Iversen wrote:
> Hi,
> In the release notes for version
The input is already specified as the --glmdir
doug
Rosa Steimke wrote:
> HI!
> i have a question regarding multiple comparion correction in qdec. can i use
> a clusterwise correction?
>
> i found the following script for glm:
>
> mri_glmfit-sim \
> --glmdir lh.gender_age.glmdir \
> --sim mc
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