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Custom FSL Installation (based on wiki, with FAQ troubleshooting)

Make sure the VM has been customized, especially setting the shell to tcsh, and changing the /usr/local permissions

  • Download the latest FSL distribution, and copy it to /usr/local
  • Extract: tar xzvf ...
  • Edit the shell script to set the environment variables: from home directory, gedit .tcshrc (the same file that has FreeSurfer variables)

setenv FSLDIR /usr/local/fsl
source ${FSLDIR}/etc/fslconf/fsl.csh
setenv PATH ${FSLDIR}/bin:${PATH}

  • start fsl (type "fsl" in terminal); if nothing happens, restart
  • Click View; if you get the error 

 

/usr/local/fsl/bin/fslview_bin: error while loading shared libraries: libexpat.so.0: cannot open shared object file: No such file or directory

install libexpat0. System => Administration => Add/Remove Software, search for libexpat0, or compat-expat. Check, click Apply, enter root password.

  • If you get a similar error with libmng, this is available through the Add/Remove Software (search for libmng, and select the non-development option).



 

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