= 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 * FAQ: http://www.fmrib.ox.ac.uk/fslfaq/ * 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 any other fsl command you need to run {{{ fsl_4.1.0_setup }}} which is the latest version of fsl at the moment. By running this command you also have load sharing with any fsl commands. == 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.