Nick,
I have got libexpat.so.1 installed, but it will be very difficult to
install both libexpat.so.0 and libexpat.so.1 at the same time on
Gentoo. Is there any special customisation for the VTK libs necessary?
Otherwise, I would try to use the VTK libs shipped with Gentoo instead
of the
To provide additional info:
The vtk libs shipped with the freesurfer distribution don't seem to
depend on libexpat.so.0, they link against libexpat.so.1, which is
available. There must be something else that is linked against
libexpat.so.0. Any idea?
Volkmar
Am Freitag, den 21.11.2008, 09:30 +01
> Hello,
>
> We are having some trouble with autorecon1, specifially the watershed step.
> Here's the error we get:
>
>
> > #
> > [EMAIL PROTECTED] Skull Stripping Tue Nov 18 15:19:59 EST 2008
> > /autofs/space/madrc_007/users/adeluca/RETRRO_structural
have you looked at the T1.mgz? Is it ok? Does the talairach.xfm look
reasonable?
On Fri, 21 Nov 2008, Dashkoff, Jonathan David wrote:
Hello,
We are having some trouble with autorecon1, specifially the watershed step.
Here's the error we get:
#
[EM
Hi Volkmar,
we also had an exception thrown relating to libexpat (what
does it do, anyway?), but we solved it
by creating a soft link between so.1 and so.0 in the same directory (can be
dome with ln -s command on unix/linux,
link what you already have, with what the software wants
The cortical segmentation from the aseg does not often line up very well
as it is only based on a voxel/volume analysis. The aseg is not informed
by the surface analysis.
doug
[EMAIL PROTECTED] wrote:
Hello all-
I'm having some trouble with sessions in which the pial surface is not
matching
Volkmar,
If creating the softlink doesnt solve the problem for you (and I think
that it should, as it did for Sid), then you can get a new v4.1.0 for
x86_64 that i posted here:
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/fsdev/nicks/stable/centos4_x86_64
It has the libexpat dependency rem
Zhang,
The web page describing the steps to extract cortical thickness data for
your volume-space defined ROI is found here:
https://surfer.nmr.mgh.harvard.edu/fswiki/VolumeRoiCorticalThickness
Nick
On Mon, 2008-11-17 at 14:02 -0500, Zhang, Xiaochu (NIH/NIDA) [F] wrote:
> Thank you so much fo
Hi again, everyone,
Apologies for another newbie question, but i
was wondering what is the best thing
to be done in case the program crashes in midflight, during the recon-all
invocation. As of now, i have
identified that the processing crashed sometime during mris_mak
Sid,
Firstly, make sure it didnt crash because of bad data. That is, if you
can make the program that crashed crash again, check the input data. As
for restarting, you can either use:
recon-all -s subjid -make all
which will make just the files that are missing or out-of-date relative
to their
Hi Nick,
Thanks. i restarted as you recommended. My initial command had
a -lGI flag. Obviously, it will not be considered during this second run. I
do
not want to restart the process now, but i wanted to know if the GI can be
calculated
separately after all the stages of recon-all are d
Sid,
Yes, you can run:
recon-all -s subjid -lgi
after your current recon-all run has completed. It will run just the
local GI steps. you will need matlab installed to run the -lgi stage.
Nick
On Fri, 2008-11-21 at 16:47 -0800, Siddharth Srivastava wrote:
> Hi Nick,
> Thanks. i
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