hpc sample .bash_profile

.bash_profile

# .bash_profile

# Get the aliases and functions
if [ -f ~/.bashrc ]; then
	. ~/.bashrc
fi

# User specific environment and startup programs
PATH=$PATH:$HOME/.local/bin:$HOME/bin
export PATH

AUTOPTXPATH=/rigel/psych/app/autoPtx

#--------BEGIN FSL SETUP---------#
PATH=$PATH:/rigel/psych/app/fsl/bin:${AUTOPTXPATH}
export PATH
export FSLDIR=/rigel/psych/app/fsl
. /rigel/psych/app/fsl/etc/fslconf/fsl.sh
#export OMP_NUM_THREADS=1
#--------END FSL SETUP-----------#

#--------BEGIN FREESURFER SETUP--#
export FREESURFER_HOME=/rigel/psych/app/freesurfer/v6
source $FREESURFER_HOME/SetUpFreeSurfer.sh
#export SUBJECTS_DIR=<path to subject data> 
#--------END FREESURFER SETUP----#

#--------SETUP ANTs--------------#
export ANTSPATH=/rigel/psych/app/ants/v2.2/bin
PATH=$PATH:${ANTSPATH}
export PATH
#--------END ANTs SETUP----------#

#--------SETUP R LIBRARIES-------#
#export R_LIBS_SITE=/rigel/psych/app/R/library:~/.local/lib/python2.7/site-packages:${R_LIBS_SITE}
export R_LIBS_SITE=/rigel/psych/app/R/library:${R_LIBS_SITE}
#--------END R LIB SETUP---------#