[Neurodebian-users] Command line issues with FSL

[Dillon Niederhut]

Hello everyone,

I have FSL 5.0.6 installed on Ubuntu 12.0.4LTS through the neurodebian
repository. The GUI works just fine, but when I try to run commands through
the terminal, I consistently get errors saying the command cannot be found.
This is true for starting the FSL GUI through the command line, and every
command for structural imaging. diffusion imaging, and brain extraction.
The only exception is FSLView, which seems to work just fine from the
command line.

I tried uninstalling and reinstalling the FSL core, which hasn't helped.
I've dug around a bit through the google search results for this issue, but
trying different command names hasn't helped either. I found a few archived
email exchanges talking about configuring bash files, but I don't know
enough about unix to know what this is. Can anyone help?

Thanks,
Dillon

Dillon Niederhut
Doctoral Candidate
University of California, Berkeley
Department of Anthropology
232 Kroeber Hall
Berkeley, CA 94720
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