# set prompt
export PS1="\[\e]0;\u@\h: \w\a\]${debian_chroot:+($debian_chroot)}\[\033[01;31m\]\u@\h\[\033[00m\]:\[\033[01;34m\]\w\[\033[00m\]> "

# set some useful aliases
[ "$(uname)" == "Linux" ]  && alias ls='ls -F --color=auto'
[ "$(uname)" == "Darwin" ] && alias ls='ls -FG'
[ "$(uname)" == "Darwin" ] && alias libreoffice='/Applications/LibreOffice.app/Contents/MacOS/soffice'
alias ll='ls -alF'
alias la='ls -A'
alias l='ls -l'
alias lt='ls -lrt'
alias ..='cd ..'
alias ...='cd ../..'

# set location of tutorial data
export TUTORIAL_DATA=~/tutorial_data

## source freesurfer
export FREESURFER_HOME=~/freesurfer
if [ "`tty`" != "not a tty" ]; then
   source $FREESURFER_HOME/SetUpFreeSurfer.sh
fi

# set location of FSL (required for Diffusion and TRACULA tutorials only)
export FSL_DIR=$FREESURFER_HOME/fsl_507
# Apparently some files still use this env var without the underscore
export FSLDIR=$FSL_DIR

# set location of Matlab and other Matlab/FSFAST related variables (Required for FSFAST tutorial only)
export FS_MCRROOT=$FREESURFER_HOME/MCRv83/v83
export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"$FS_MCRROOT/runtime/glnxa64"
export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"$FS_MCRROOT/bin/glnxa64"
export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"$FS_MCRROOT/sys/os/glnxa64"
export LD_LIBRARY_PATH="/usr/lib/x86_64-linux-gnu":"/lib/x86_64-linux-gnu":"$LD_LIBRARY_PATH"
# fix for broken libreoffice command line utilities
export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:/usr/lib/libreoffice/program"
export FS_SPMREG_USE_BIN=1
export FS_MKCON_USE_BIN=1
export FS_SXA3_USE_BIN=1