MNE Class Notes
These notes describe the setup of the laptops used for the MNE class. These notes complement the notes for the MultiModal course, which describes a course setup more generally.
CentOS config
- Centos 5 x86_64 SMP
laptops are named 'nmrclass<number>', where <number> is 7 - 21
- user account named 'mneclass', default shell is tcsh, with the default password (ask Nick or Help), where 'mneclass' user created this way:
useradd -d /home/mneclass -s /bin/tcsh mneclass
followed by:
passwd mneclass
- the 'mneclass' account .cshrc should contain this:
# exit if not an interactive shell
if ($?USER == 0 || $?prompt == 0) exit
alias dir "ls -alF"
# turn-off error beep
xset b off
#
# MATLAB
#
if ( -e /home/apps/matlab/bin ) then
setenv PATH "/home/apps/matlab/bin":"$PATH"
setenv MATLAB_ROOT /home/apps/matlab
echo "MATLAB_ROOT $MATLAB_ROOT"
endif
#
# MNE
#
if ( -e /home/apps/mne/current ) then
setenv MNE_ROOT /home/apps/mne/current
echo "MNE_ROOT $MNE_ROOT"
if ( -e /home/apps/mne/sample-data ) then
setenv MNE_DATA /home/apps/mne/sample-data
echo "MNE_DATA $MNE_DATA"
setenv SUBJECTS_DIR $MNE_DATA/subjects
echo "SUBJECTS_DIR $SUBJECTS_DIR"
setenv SUBJECT sample
endif
source $MNE_ROOT/bin/mne_setup
endif
#
# Freesurfer and FS-FAST
#
if ( -e /home/apps/freesurfer/SetUpFreeSurfer.csh ) then
setenv FREESURFER_HOME /home/apps/freesurfer
setenv NO_FSFAST 1
source $FREESURFER_HOME/SetUpFreeSurfer.csh
endif
Notes
- MNE v2.7.0 is installed in /home/apps/mne, and a symlink made to /home/apps/mne/current
- The file MNE-sample-data-2.5.tar.gz has been untarred to /home/apps/mne