Custom HPC software & tools from Wirawan. Primarily tailored toward ODU HPC sytems.
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# -*- bash -*-
#
# BASH support scriplet for environment modules.
#
# Simply "source" this script with "init" argument,
# then you can use "module" command from the batch script.
#
# Example (from within your batch script):
#
# source ~/local/bash-module-env.sh init
# module load gcc
#
# Optional: if you want to restore the modules listed in $LOADEDMODULES
# (which will need to be passed on to the script via "-v LOADEDMODULES" argument
# when qsub-ing, then use "restore" argment instead:
#
# Example (from within your batch script):
#
# source ~/local/bash-module-env.sh restore
#
# Some cluster defaults (may change over time)
# Reference: /etc/profile.d/modules.sh
MODULESHOME_DEFAULT=/cm/local/apps/environment-modules/3.2.10/Modules/3.2.10
MODULEPATH_DEFAULT=/cm/local/modulefiles:/cm/shared/modulefiles:/cm/shared/compilers
# RestoreModuleEnv restores module environment at batch-job runtime to be
# exactly the same as the environment at the time of job submission.
# It requires the following variables to be set:
# - MODULESHOME (optional; default provided above)
# - MODULEPATH
# - LAODEDMODULES
RestoreModuleEnv () {
local LOADEDMODULES_SAVE
: ${MODULESHOME:=$MODULESHOME_DEFAULT}
_AppendPaths MODULEPATH "$MODULEPATH_DEFAULT"
export MODULESHOME
export MODULEPATH
LOADEDMODULES_SAVE=$LOADEDMODULES
unset LOADEDMODULES
source "$MODULESHOME/init/bash"
if [ -n "$LOADEDMODULES_SAVE" ]; then
module load ${LOADEDMODULES_SAVE//:/" "}
fi
if [ -n "$Debug" -o -n "$DEBUG_MODULES" ]; then
echo "New loaded modules: $LOADEDMODULES"
module list
fi
}
InitModuleEnv () {
# Only do the initialization part of the module so "module" command
# is available for the script
: ${MODULESHOME:=$MODULESHOME_DEFAULT}
_AppendPaths MODULEPATH "$MODULEPATH_DEFAULT"
#: ${MODULEPATH:=$MODULEPATH_DEFAULT}
export MODULESHOME
export MODULEPATH
source "$MODULESHOME/init/bash"
}
_AppendPath () {
# Usage: AppendPath VARNAME A_PATH
# Appends a path element if it doesnt exist in current path
local VAR VAL P
VAR=$1
P=$2
VAL=$(eval "echo \"\$$VAR\"") # gets the current value of variable ${!VAR}
case ":${VAL}:" in
*:"${P}":*)
;;
*)
VAL="${VAL}:${P}"
eval "$VAR=\$VAL"
;;
esac
}
_AppendPaths () {
# Usage: AppendPath VARNAME PATHLIST
# Appends one or more elements from PATHLIST for the elements that don't
# exist in current path
local VAR PATH1 PATHLIST
VAR=$1
PATHLIST=$2
for PATH1 in ${PATHLIST//:/" "}; do
_AppendPath "$VAR" "$PATH1"
done
}
# For convenience:
if [ "$1" = restore ]; then
RestoreModuleEnv
elif [ "$1" = init ]; then
InitModuleEnv
fi