Diff for "FslInformation" - MRC CBU Imaging Wiki
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On our system, the current version of FSL (that is, the version you get by typing 'fsl' at the command prompt) is the one pointed to by the link `/imaging/local/linux/fsl`. At the time of writing this is the slightly outdated 3.2 version.
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Any problems, report them to MatthewBrett or RhodriCusack. 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 are also using load sharing with any fsl command.

== 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.

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:

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 are also using load sharing with any fsl command.

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.

CbuImaging: FslInformation (last edited 2019-09-11 13:50:27 by MartaCorreia)