Sorry, there's no way to do that.
There's also no way to set the backgroud color in the window.
--
Daniel Goldenholz
-
Cell: 617-935-9421 http://people.bu.edu/danielg/
"Mavet v'chaim b'yad halashon"
_average:
MRIread(/autofs/space/megraid_043/seder/freesurfer/nmr00069/mri/tmp-mri_motion_correct.fsl-11962/cor-2.img)
failed
Linux rerun 2.6.9-22.0.2.106.unsupportedsmp #1 SMP Fri Jan 20 04:48:30
CST 2006 x86_64 x86_64 x86_64 GNU/Linux
recon-all exited with ERRORS at Thu Mar 23 11:43:38 EST 2006
-
e file...alas
i just changed the recon-all script to call mri_mask when it
gets the -norm2 flag...this seems to have worked.
sarah
Original message
Date: Wed, 22 Mar 2006 18:09:11 -0500
From: Daniel Goldenholz <[EMAIL PROTECTED]>
Subject: Re: [Freesurfer] Faster and Parallel
kes about 30 hrs
to process 1 scan currently.
-Dhruman
-Original Message-
From: Daniel Goldenholz [mailto:[EMAIL PROTECTED]
Sent: Tuesday 21 March 2006 17:09
To: Goradia, Dhruman D
Cc: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Faster and Parallel recon-all
Dhruman
Thanks for c
. I am still
probing into this. If you can think of something that might be of help
then let me know.
-Dhruman
-Original Message-
From: Daniel Goldenholz [mailto:[EMAIL PROTECTED]
Sent: Tuesday 21 March 2006 11:25
To: Goradia, Dhruman D
Subject: Re: [Freesurfer] Faster and Parallel r
The script looks good. The one thing it needs though is for the right
and left hemi steps to log to separate files, otherwise output to recon-
all.log will be interleaved, making debugging impossible.
On Thu, 2006-03-16 at 12:15 -0500, Daniel Goldenholz wrote:
Ooops. I sent the below wit
aniel Goldenholz wrote:
Ooops. I sent the below with the wrong subject tag. Here it is again:
Daniel Goldenholz wrote:
Freesurfers
I was hoping someone else would do this, but well, it seems that no
one did. So I went ahead and made this myself.
Amusingly, I don't NEED to reconstruct
Ooops. I sent the below with the wrong subject tag. Here it is again:
Daniel Goldenholz wrote:
Freesurfers
I was hoping someone else would do this, but well, it seems that no
one did. So I went ahead and made this myself.
Amusingly, I don't NEED to reconstruct any brains right now,
Freesurfers
I was hoping someone else would do this, but well, it seems that no one
did. So I went ahead and made this myself.
Amusingly, I don't NEED to reconstruct any brains right now, so I don't
have anything to test this out with.
Please someone try it, and let me know if it is helpful.
option for vector graphics or high resolution tiff or png images?
Best, Darren
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Daniel Goldenholz
-
t implemented yet in cache_volume_range_has_changed()
Mode: atlas analysis
VALIDATION***
THE SEGMENTATION IS PROBABLY NOT CORRECT
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Daniel Goldenholz
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Cell: 617-935-9421 http://people.bu.edu/danielg/
"Mavet v'chaim b'yad halashon&q
Hi. I was wondering if anybody out there has made other parcellations of
the entire brain besides the standard freesurfer one with 81 named regions?
For instance, did anybody go to the painful trouble of making a 4 lobe
parcellation?
Thanks
Daniel Goldenholz
ion is strictly
prohibited. If you have received this e-mail in error, please
immediately notify the sender via telephone or return e-mail.
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-10.110786 29.012054 -11.469879
Bruce Fischl wrote:
Hi Daniel,
you need to look at your original data (e.g. dicom files). You can
mri_info to tell you.
Bruce
On Tue, 20 Sep 2005, Daniel Goldenholz wrote:
Hi. I was handed some data analyzed with freesurfer, and I would like
to know what is
Hi. I was handed some data analyzed with freesurfer, and I would like to
know what is the exact resolution of the T1 mri, i.e. 1.25mm x 3mm x 2mm
for example.
Where can I look in the freesurfer folder to find out?
Thanks
--
Daniel Goldenholz
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
--
Daniel Goldenholz
-
Cell: 617-935-9421 http://people.bu.edu/danielg/
"Mavet v'chaim b'yad halashon"
"Life and death are in the hands of language"
eimer
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Cell: 617-935-9421 http://people.bu.edu/danielg/
begin:vcard
fn:D
I was just asked this same question twice in a short time, so I guess
that is a sign that others might want to know the answer too.
The short version of the question is:
"How can I get freesurfer to work from a remote VNC setup?"
The answer is, thanks to a hint from Paul Raines, very simple.
When
Hi. I would like to report two bugs in CSURF, and also ask for a hint
about using it.
BUGS:
1. If you save an image to TIFF or RGB, the screen does not redraw
itself before saving. Therefore, any menus or windows that might have
drawn over the image will get saved into the file. This bug can be
does,
because for surface spacings of 6, I expect euclidean distances to be less
than 6, and for surface spacings of 10, I expect euclidean distances to be
less than 10.
Thoughts from freesurfing fellows?
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Daniel Goldenholz
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Cell: 617
the patch)
?
Thanks
Daniel
On Tue, 8 Mar 2005, Bruce Fischl wrote:
Hi Daniel,
don't use Euclidean distance. Use the length of the great circle connecting
each point to the central vertex on the ?h.sphere surface.
Bruce
On Tue, 8 Mar 2005, Daniel Goldenholz wrote:
Doug
I was thinking of trying
of course, has some metric
distortion, but if the patch is small, it might not be to bad. Once
you've identified the vertices in the patch (or maybe a slightly bigger
patch), then you can refine it in the folded space.
doug
Daniel Goldenholz wrote:
Hi. I have a graph theory question:
I would
walk from the centroid in any direction for a certain
distance, and still be within my "patch."
Knowing that distance (radius), I could just use pi*r^2 and call
that the area of the patch.
But how do I find this idealized patch in real life?
Thanks
Daniel
On Thu, 22 Jul 2004, Daniel Goldenholz wrote:
Ok. Well I wouldn't mind whipping this up in matlab, but I need to know
the format.
Daniel
On Thu, 22 Jul 2004, Doug Greve wrote:
You'd also have to make sure that the labels did not overlap as there is
no way to represent this in the annot fil
7;t think so. I guess you'd need a color file as well. It would be
pretty easy
Bruce
On Wed, 21 Jul 2004, Daniel Goldenholz wrote:
Is there a command out there that converts a set of labels into an annot file
automatically? It would be very useful...
__
Is there a command out there that converts a set of labels into an annot
file automatically? It would be very useful...
--
Daniel Goldenholz
-
Cell: 617-935-9421 http://people.bu.edu/danielg
, and then view it remotely.
For reasons that are not clear to me, this didn't work either.
So. What I want to do is given a particular view that I set up in a tcl
script, I would like to get an RGB file of that, without drawing it
locally.
Any ideas or creative workarounds?
Thanks
-
s .w files, and then figure out automatically where
clusters (blobs) appear, and then create a label file for each one)
Daniel Goldenholz
-
Cell: 617-935-9421 http://people.bu.edu/danielg/
___
Fre
point is INSIDE or OUTSIDE the 3D volume called "brain" bounded by the
surface I read in?
Thanks,
--
Daniel Goldenholz
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rfaces?
Thanks
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