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This commit is contained in:
eugen.betke
parent
31c3a605b5
commit
05ceebff31
97
batch_job.sh
97
batch_job.sh
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@ -18,10 +18,6 @@ function die() {
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echo "$1" && exit 1
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}
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function command_exists() {
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type "$1" &> /dev/null;
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}
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export MODULEPATH=/gsfs/betke/software/modules:$MODULEPATH
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@ -45,41 +41,70 @@ module list
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type mpiexec 2>&1 || die "mpiexec not found"
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type benchtool 2>&1 || die "benchtool not found"
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#set -x
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IOR="$(which ior)"
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#IOR="/opt/ddn/ior/bin/IOR-mvapich"
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IOR="$(which ior)" # default IOR (path to DDN-IOR is hardcoded in the nested loops)
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NCBENCH="$(which benchtool)"
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TESTDIR="/ime/isc18/perf"
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#TIMESTAMP=$(date +"%Y%m%d_%H%M%S")
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TIMESTAMP="20171218_162418"
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LUSTRE_TESTFILE="/esfs/isc18/perf/file"
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FUSE_TESTFILE="/ime/isc18/perf/file"
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IME_TESTFILE="ime:///esfs/isc18/perf/file"
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OUTPUTDIR="./output"
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SLURM_OUTPUT="slurm/slurm-%j.txt"
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#set +x
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WORKDIR="/gsfs/betke/git/manny-benchmark/scripts"
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cd $WORKDIR
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PROG_ARR=("$IOR")
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#PROG_ARR=("$NCBENCH" "$IOR")
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#NN_ARR=(1 2 4 8 12 16)
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# Benchmarks to run
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# NCBENCH - NetCDF bench
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# IOR - default IOR and DDN-IOR
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PROG_ARR=("$IOR" "$NCBENCH")
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# Experiment scaling
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# NN_ARR: number of nodes
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# PPN_ARR: processes per node
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NN_ARR=(10 8 6 4 2 1)
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#NN_ARR=(16 12 8 4 2 1)
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PPN_ARR=(8 6 4 2 1)
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# Data geomentry of int (4 bytes) values
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# Attention: it was too small in the previous experiments
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# TIME, X, Y, Z: size of dimensizion
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# size = time * x * y * z * 4 bytes
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TIME_ARR=(100)
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XGEOM_ARR=($((8 * 2)))
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YGEOM_ARR=($((8 * 8)))
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#ZGEOM_ARR=(4 25 256 2560)
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ZGEOM_ARR=(2560 256 25 4)
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TYPE_ARR=("ind" "coll") #( "ind" "coll" )
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# I/O type (only for NetCDF-Bench, ior runs alway in independent mode)
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# ind - independent
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# coll - collective
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TYPE_ARR=("ind" "coll")
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# Interface list
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# ime - direct access to IME using DDN-IOR
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# mpio - enable MPIO interface in IOR
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# posix - enable POSIX interface in IOR
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IFACE_ARR=("ime" "mpio" "posix")
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# File systems list
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# ime - direct access to IMEs using DDN IOR
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# fuse - indirect accesss to IMEs over FUSE
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# lustre - Lustre files system
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FS_ARR=("ime" "lustre" "fuse")
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CHUNKED_ARR=("none" "-c=auto") #("none") # ( "none" "-c=auto" )
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# NetCDF4 chunking
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# none - disable chunking
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# auto - chunking enabled (see netcdf-bench documentation for details)
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CHUNKED_ARR=("none" "-c=auto")
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# NetCDF4 unlimited dimensions
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# none - disabled unlimited dimensions
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# -u - enabled unlimited dimenstions
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UNLIMITED_ARR=("none" "-u") # ( "none" "-u" )
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#FILL_VALUE_ARR=("-F" "none") # "-F" )
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# NetCDF4 fill value
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# none - disable fill value
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# -F - enable fill value
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FILL_VALUE_ARR=("none") # "-F" )
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@ -91,12 +116,14 @@ TDIR="$(dirname $IME_TESTFILE)"
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srun --nodes=1 --ntasks=1 mkdir -p $TDIR
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mkdir -p $OUTPUTDIR
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# Run an experiment
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function runTest(){
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local l_command="$1"
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local l_out="$2"
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local l_testdir="$3"
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local l_stripes="$4"
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local l_debug="$5"
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local l_wml="$(which mpiexec) -ppn 1 -np 1"
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@ -116,10 +143,8 @@ function runTest(){
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rm -rf $l_testdir
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}
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#TESTFILE=$(makeOutputName $OUTPUTDIR $NN $PPN $T $X $Y $Z $TYPE $CHUNKED $UNLIMITED $FILLVALUE)
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DEBUG=false
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# Create function names
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function makeOutputName() {
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local l_outdir="$1"
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local l_tag="$2"
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@ -146,6 +171,11 @@ function makeOutputName() {
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echo ${l_out}
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}
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# Parameter exploration loops
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for COUNT in $(seq 3); do
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for PROG in ${PROG_ARR[@]}; do
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for NN in ${NN_ARR[@]}; do
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@ -168,14 +198,6 @@ for FILL_VALUE in ${FILL_VALUE_ARR[@]}; do
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echo "skip ${BENCHFILE}, because -t=ind and -u are not supported"
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else
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#HNUM_ARR=("02" "03" "04" "05" "06" "08" "09" "10" "12" "13" "14" "23")
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#HNUM_ARR=("02" "03" "04" "05" "06" "08" "09" "10" "11" "14" "23" "12")
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#HNUM_ARR=("${HNUM_ARR[@]/#/isc17-c}")
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#HOST_LIST="$(IFS=, ; echo "${HNUM_ARR[*]}")"
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#HOST_LIST=isc17-c02,isc17-c03,isc17-c04,isc17-c05,isc17-c06,isc17-c08,isc17-c09,isc17-c10,isc17-c12,isc17-c13,isc17-c14,isc17-c18
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#HOST_LIST=isc17-c02,isc17-c03,isc17-c04,isc17-c05,isc17-c06,isc17-c08,isc17-c09,isc17-c10,isc17-c11,isc17-c12,isc17-c14,isc17-c23
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HOST_LIST=isc17-c02,isc17-c03,isc17-c04,isc17-c05,isc17-c08,isc17-c09,isc17-c10,isc17-c12,isc17-c14,isc17-c23
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@ -184,6 +206,7 @@ for FILL_VALUE in ${FILL_VALUE_ARR[@]}; do
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#"-genv IM_MONITOR_FILE /dev/shm/native_mon.%p " \
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#"-genv IM_CLIENT_NET_BUFFERS 32 " \
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# Workload manager configuration
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WLM="$(which mpiexec) -ppn ${PPN} -np $(($NN*$PPN)) -hosts $HOST_LIST "
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WLM+="-genv IM_CLIENT_NET_BUFFERS 32 "
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WLM+="-genv MV2_NUM_HCAS 1 "
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@ -212,27 +235,27 @@ for FILL_VALUE in ${FILL_VALUE_ARR[@]}; do
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if [[ "lustre" == "${FS}" ]]; then
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if [[ "posix" == "${IFACE}" ]]; then
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if [[ "ind" == "${TYPE}" ]]; then
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runTest "$WLM $IOR -s $S -t $B -b $B -o $LUSTRE_TESTFILE $PARAMS -f ./tests/POSIX-individual" "${BENCHFILE}" "$(dirname $LUSTRE_TESTFILE)" "$STRIPES" "$DEBUG"
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runTest "$WLM $IOR -s $S -t $B -b $B -o $LUSTRE_TESTFILE $PARAMS -f ./tests/POSIX-individual" "${BENCHFILE}" "$(dirname $LUSTRE_TESTFILE)" "$STRIPES"
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fi
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elif [[ "mpio" == "${IFACE}" ]]; then
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if [[ "ind" == "${TYPE}" ]]; then
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runTest "$WLM $IOR -s $S -t $B -b $B -o $LUSTRE_TESTFILE $PARAMS -f ./tests/MPI-shared" "${BENCHFILE}" "$(dirname $LUSTRE_TESTFILE)" "$STRIPES" "$DEBUG"
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runTest "$WLM $IOR -s $S -t $B -b $B -o $LUSTRE_TESTFILE $PARAMS -f ./tests/MPI-shared" "${BENCHFILE}" "$(dirname $LUSTRE_TESTFILE)" "$STRIPES"
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fi
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fi
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elif [[ "fuse" == "${FS}" ]]; then
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if [[ "posix" == "${IFACE}" ]]; then
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if [[ "ind" == "${TYPE}" ]]; then
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runTest "$WLM $IOR -s $S -t $B -b $B -o $FUSE_TESTFILE $PARAMS -f ./tests/POSIX-individual" "${BENCHFILE}" "$(dirname $FUSE_TESTFILE)" "$STRIPES" "$DEBUG"
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runTest "$WLM $IOR -s $S -t $B -b $B -o $FUSE_TESTFILE $PARAMS -f ./tests/POSIX-individual" "${BENCHFILE}" "$(dirname $FUSE_TESTFILE)" "$STRIPES"
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fi
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elif [[ "mpio" == "${IFACE}" ]]; then
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if [[ "ind" == "${TYPE}" ]]; then
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runTest "$WLM $IOR -s $S -t $B -b $B -o $FUSE_TESTFILE $PARAMS -f ./tests/MPI-shared" "${BENCHFILE}" "$(dirname $FUSE_TESTFILE)" "$STRIPES" "$DEBUG"
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runTest "$WLM $IOR -s $S -t $B -b $B -o $FUSE_TESTFILE $PARAMS -f ./tests/MPI-shared" "${BENCHFILE}" "$(dirname $FUSE_TESTFILE)" "$STRIPES"
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fi
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fi
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elif [[ "ime" == "${FS}" ]]; then
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if [[ "ime" == "${IFACE}" ]]; then
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if [[ "ind" == "${TYPE}" ]]; then
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runTest "$WLM /opt/ddn/ior/bin/IOR-mvapich -s $S -t $B -b $B -o $IME_TESTFILE $PARAMS -a "IM"" "${BENCHFILE}" "$TESTDIR" "$STRIPES" "$DEBUG"
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runTest "$WLM /opt/ddn/ior/bin/IOR-mvapich -s $S -t $B -b $B -o $IME_TESTFILE $PARAMS -a "IM"" "${BENCHFILE}" "$TESTDIR" "$STRIPES"
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fi
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fi
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fi
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@ -240,7 +263,7 @@ for FILL_VALUE in ${FILL_VALUE_ARR[@]}; do
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fi
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fi
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#runTest "$WLM $IOR -a IM -s $S -t $B -b $B -o ime://$TESTFILE -e -f ./tests/MPI-shared" "shared" "${BENCHFILE}" "$TESTDIR" "$STRIPES" "$DEBUG"
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#runTest "$WLM $IOR -a IM -s $S -t $B -b $B -o ime://$TESTFILE -e -f ./tests/MPI-shared" "shared" "${BENCHFILE}" "$TESTDIR" "$STRIPES"
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#set +x
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;;
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$NCBENCH)
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