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Michael, Thanks for your help. I just switched to bash. Fsl works fine now and I can call up the gui. A few more questions. If I want to run a simple command at the prompt, let's say "bet2", with the debian package, do i have to type "fsl4.1-bet2" instead from now on? Thanks, Michael On Wed, 23 Feb 2011 09:57:03 -0500, Michael Hanke <[log in to unmask]> wrote: >On Wed, Feb 23, 2011 at 02:38:23PM +0000, Michael Keaser wrote: >> I keep getting this error message: >> >> /usr/share/fsl/4.1//etc/fslconf/fslmachtype.sh: Command not found. >> >> When i try to source the fsl.csh. > >Right, but that should only be annoying and not have an actual negative >impact. It sets up a variable that is useful for FSL development. > >> >May I asked what other software needs to have you using CSH as your >> >interactive shell (and not simply as an interpreter)? >> >> Well, i use AFNI, matlab, SPM, etc., but i don't think its that >> imperative that we use the tcsh. We could probably make the swtich >> with no problem. > >I agree. None of them needs it. FYI, there is also a Debian package for >AFNI and an initial one for SPM. Take a look at http://neuro.debian.net >for more software (mricron, caret, dicomnifti, itksnap, mriconvert, mrtrix, >...). > >> I'm just wondering, if we do switch over to bash, will we be able to >> type just "fsl", and the entire gui will come up with the selection of >> options? We were able to do that previously in Redhat. > >That is what it should do -- not only in bash, but any POSIX shell >(bash,dash,ksh,zsh,....). Just follow the instructions in the FSL >manpage and you should be all set. > >Michael > >-- >Michael Hanke >http://mih.voxindeserto.de