I suspect that your problem has nothing to do with freesurfer, but
with your environment (the variables that are set up, you can see
their totality if you enter 'env' in the terminal).
If you've followed the instructions on the install page
(http://www.fmrib.ox.ac.uk/fsl/fsl/macosx.html) that shouldn't happen.
If you've done something different, like installing fsl in an unusual
location (say, /some/directory/fsl/), you need to run these commands:
Once you've done that, the fsl command should work in the terminal
window where you've made these settings.
Hope that helps
On Mon, Jul 27, 2009 at 09:43:37AM +0100, William Sohn wrote:
> Hi I'm new with macs and i recently installed both fsl and freesurfer on my
> mac. I installed fsl first and it was working fine but once i installed freesurfer
> when i typed the 'fsl' command in the terminal it no longer works. It
> says "fsl:command not found."
> I was wondering if anybody knows what is going on.
> Thank you,
> -William Sohn
Rolf A Heckemann, PhD
Division of Neuroscience and Mental Health
MRC Clinical Sciences Centre
Imperial College London
Hammersmith Hospital Campus
Du Cane Road
London W12 0HS