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FSL information
FSL is the FMRIB Software Library. It is a C / C++ / Tcl/Tk package written by the Oxford analysis group.
For more information see:
Main page: http://www.fmrib.ox.ac.uk/fsl
FSL course notes: http://www.fmrib.ox.ac.uk/fslcourse/
You can find the FSL example data set (http://www.fmrib.ox.ac.uk/fsl/feeds/doc/index.html) in /imaging/local/fsl/feeds.
The data for the FSL course is in /imaging/local/fsl/fslcourse.
Any problems, report them to RhodriCusack.
Using the latest version of FSL
Before running fsl you need to run
fsl_4.1.2_setup
which is the latest version of fsl at the moment. By running this command you are also using load sharing with any fsl command. If you want to check if you are using the latest version try
which fsl
Using a specific version of FSL on the CBU systems
If you need to use a specific version, rather than the one pointed to by /imaging/local/linux/bin/fsl, then define the path to the version of FSL you want, and put something like this at the end of your ~/.cshrc file:
# FSL stuff setenv FSLDIR /imaging/local/linux/bin/fsl-3.3.11 source ${FSLDIR}/etc/fslconf/fsl.csh set path = (${FSLDIR}/bin $path)
In order for this to work when you login across linux machines, you will (I'm afraid) also need to put the same lines in your ~/.login file. Put these lines somewhere between the lines # Space for personal defaults and # End space for personal defaults in the ~/.login file. By using this method load sharing is not used automatically.