Hi Kushal,
Exhibit A:
On Oct 18, 2004, at 4:32 PM, Bruce Fischl wrote:
what happens when you run it on a Linux machine?
You might expect a response like this from some random joker on the
mailing list (such as me). Take a moment and consider the source
here. Hmmm
Exhibit B:
On Oct 18, 200
I don't know that much about Macs. I assume that they have a /tmp that
is writable? It might be the case that that dir does not have enough
space to hold an mri COR volume. You can change the temp dir that
mri_motion_correcct2 uses with the "-tmpdir your/new/tmp". See if that
solves the problem.
hi everyone,
Well I couldn't run the mri_motion_correct on my Mac
machine but I found another tool called
mri_motion_convert2 in the /bin/noarch folder of
freesurfer. I was able to run the utility by
specifying output directory and the input files.
But after it did all the processing it gives an
what happens when you run it on a Linux machine?
On Mon, 18 Oct 2004, Kushal
Koolwal wrote:
hi,
I am using MAC OS X and when i try to run the
mri_motion_correct command it says that this command
should be run on a linux machine.
DoI have to use the register.csh command that they
have specified in
hi,
I am using MAC OS X and when i try to run the
mri_motion_correct command it says that this command
should be run on a linux machine.
DoI have to use the register.csh command that they
have specified in the manual.
I even did that once but I got errors in between the
process.
this is the
Hi Dan,
if you have a good talairach.xfm it is used for this purpose.
cheers,
Bruce
On Mon, 18 Oct
2004, Daniel Wehner wrote:
Hi,
Is there a good way to ensure that the cutting planes are accurate for
segmenting the white matter? In some subjects, it appears that their head
was tilted in the sc
Hi,
Is there a good way to ensure that the cutting planes are accurate for
segmenting the white matter? In some subjects, it appears that their head
was tilted in the scanner, so some slices contain both RH and LH white
matter. Because of this, the cerebellum sometimes gets connected during
mri
In matlab you can use the load_mgh.m save_mgh.m routines found in
FREESURFER_HOME/matlab.
[T1, M, mr_parms] = load_mgh('t1.mgh');
R1 = 1./T1;
save_mgh(R1,'r1.mgh', M, mr_parms);
M and mr_params are header info that should stay with the data.
doug
Irina Sigalovsky wrote:
>
> Hi,
>
> I was
and your CSURF_DIR is probably wrong.
try this:
setenv CSURF_DIR $FREESURFER_HOME
(it should not be the subject's id)
good luck,
brian t. quinn
On Mon, 18 Oct 2004, Bruce Fischl wrote:
> Hi Massimiliano,
>
> it looks like your SUBJECTS_DIR isn't set properly. It should be:
> setenv SUBJECTS_DIR
Hi Massimiliano,
it looks like your SUBJECTS_DIR isn't set properly. It should be:
setenv SUBJECTS_DIR /home/calabrem/freesurfer/subjects
I think, from looking at your email.
cheers,
Bruce
On Mon, 18
Oct 2004, Calabrese, Massimiliano (NIH/NINDS)
wrote:
Hello everybody
I have the problem with Par
Title: Parcellation
Hello everybody
I have the problem with Parcellation:
Setenv CSURF_DIR subjectname ok
Parcellate_subjectname error
home/calabrem/freesurfer/subjects/01165> parcellate_subject 01165
reading atlas from 01165/average/lh.atlas2002_simp
Hi, I have run the process volume and create surface commands on a set of
structural data, but when i go to edit segmentation, nothing comes up in
the TkSurfer window. There are pictures in the TkEdit window, though. I
have looked through my files and the surf folder has both lh and rh files
in
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