Hello gurus, I am having a problem with getting FSL to run from startup on Ubuntu 11.04 (although had similar problem with CentOS through VMWare)
Here is my problem. I am able to follow the nice step by step for installing FSL in linux using the fsl_installer.sh script. No glitches. However
when I enter command fsl in terminal, the command is not found. So first thought was the program was not sourced. So I sourced both
the .bashrc and the .bash_profile file created during installation. Here are what the files both read ("code 1"):
"code 1"
# FSL Configuration
FSLDIR=/usr/local/fsl
. ${FSLDIR}/etc/fslconf/fsl.sh
PATH=${FSLDIR}/bin:${PATH}
export FSLDIR PATH
And I checked to make sure that the path was correct and the file was present, which it is. I also sourced both files and exited terminal.
When I reenter terminal and enter command fsl, command not found.
So then I wanted to make sure fsl was working properly. So I navigate to the directory containing fsl, enter the code in "code 1" which sources
fsl but only within that session. After sourcing it, then I entered command "fsl" and the program opens just fine.
So I close the program, exit the terminal, reenter the terminal, enter command "fsl" and the command cannot be found.
So it appears that the program is working fine, but the program is NOT properly sourced so a new session can access the program.
Then I wanted to make sure the path was correct, so I entered echo $PATH and got the following output:
/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
So this makes it clear that the directory /usr/local/fsl is not being added to the $PATH, I think this is the problem, but based on the
information placed in BOTH the .bashrc and .bash_profile files, it SHOULD be adding it. I know there is a fix for this, it's the same for
AFNI, I just cannot for the life of me remember it or fix it.
Hope this is enough information to help! Thanks so much!
Justin Perry
