Hello freesurfer gurus,
I noticed on the wiki that they recommend using tcsh when running
freesurfer, although they say other shells can be used. Is there a
significant advantage to using tcsh when running freesurfer? If I would
rather use bash is there any significant reason not to?
Warmest
Dear Freesurfer Experts
I have a Macbook 2GHz Intel Core 2 Duo (MAC OSX Version 10.4.11) and just
installed Freesurfer v4.1.0.
I followed the installation and setup steps of the freesurfer homepage and
everything seemed to work well.
When I finally tried the "tksurfer bert rh pial" command I g
I think tcsh are recommended for historical reasons. However you can use bash.
---
Pedro Paulo de M. Oliveira Junior
Diretor de Operações
Netfilter & SpeedComm Telecom
On Fri, Nov 28, 2008 at 12:02, Jared Price <[EMAIL PROTECTED]> wrote:
>
On Friday 28 November 2008 09:02:33 Jared Price wrote:
> Hello freesurfer gurus,
> I noticed on the wiki that they recommend using tcsh when running
> freesurfer, although they say other shells can be used. Is there a
> significant advantage to using tcsh when running freesurfer? If I would
> rat
Hi Freesurfers,
there is a little problem: I load fsaverage in tkmedit and marked with
tools-'Configure-Brush-Info...' an area in the volume, then I saved it as a
label (newarea.label).
I want to create a binary mask with this newarea.label and used mri_label2vol,
to have 1 where the label is a
Rafael,
You will have to use the X11 xterm to run tksurfer and tkmedit on Tiger
(Mac OS v 10.4.11). On Leopard (10.5.5), you can run those apps in
Terminal. They changed the X11 package in that OS update.
Nick
On Fri, 2008-11-28 at 15:40 +0100, [EMAIL PROTECTED] wrote:
> Dear Freesurfer Exper
Jared,
The only requirement is that tcsh is installed on your system, as some
freesurfer scripts use it (for instance, recon-all is a tcsh script, but
you can run it within bash). We 'recommend' tcsh only because many of
the wiki examples assume it as the shell.
Nick
On Fri, 2008-11-28 at 09:02
Hello,
I am trying to run freesurfer on Ubuntu and recon-all fails to finish on the
"bert" data set.
Here is the output of bugr:
FREESURFER_HOME: /usr/local/freesurfer
Build stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v4.1.0
Debian version: lenny/sid
Kernel info: Linux 2.6.24-19-generic
Paul,
I've posted a build of freesurfer v4.1.0 that doesnt have this libexpat
dependency. You can get it here:
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/fsdev/nicks/stable/centos4_x86_64
The alternative is to install the libexpat package via rpms or source.
Nick
On Fri, 2008-11-28 a
