Hi,
I am attempting to install Freesurfer on a system running Ubuntu 6.10 with x86_64 architecture.
On the Freesurfer Wiki it states that Debian users should install the Red Hat 9 package. I went ahead and did this, setting up and configuring Freesurfer following the directions listed on the Wiki.
When I enter the tcsh shell I get the following output as expected:
% tcsh -------- freesurfer-Linux-rh9-stable-pub-v3.0.5 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /home/vdcosta/freesurfer FSFAST_HOME /home/vdcosta/freesurfer/fsfast SUBJECTS_DIR /home/vdcosta/freesurfer/subjects MNI_DIR /home/vdcosta/freesurfer/mni GSL_DIR /home/vdcosta/freesurfer/lib/gsl FSL_DIR /home/vdcosta/freesurfer/fsl
However when I attempt to test my install, all commands result in the following error:
/home/vdcosta/freesurfer/bin/tkmedit.bin: Command not found.
tkmedit can be replaced by other commands to generate the same error message.
If I enter on the command line:
recon-all --help | less
: the returned ouput is what appears to be a full manual on all Freesurfer processing steps.
Do I need to install the x86_64 package?
The following is my .tcshrc file:
setenv AFNI_PATH ~/afni set path = ($path .) set path = ($path $AFNI_PATH .) set path = ($path ~/bin) set history = 100 alias copy cp alias del rm alias dir ls alias find 'find . -name !^ -print' alias dir/p 'ls . | more' alias type 'cat !^ | more' alias xterm 'xterm -sb &' alias h history alias m more= setenv FREESURFER_HOME /home/vdcosta/freesurfer source $FREESURFER_HOME/SetUpFreeSurfer.csh
Any help in getting Freesurfer running would be greatly appreciated.
Thanks,
Vinny Costa
vdcosta at ufl dot edu