Network performance measuremnet
This commit is contained in:
eugen.betke
parent
ea80bec1b7
commit
d07489b87f
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@ -1,320 +0,0 @@
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#!/bin/bash
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#SBATCH -w isc17-c[02,03,04,05,08,09,10,12,14,23]
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#SBATCH --dependency=singleton
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#SBATCH --output=slurm/slurm-%j.txt
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#SBATCH --job-name=DDNIME
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##SBATCH -w isc17-c[02-06,08-10,12-14,18]
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#These nodes can be used with DDN IME
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##SBATCH --distribution=block
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SCRIPT="$(readlink -f $0)"
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SCRIPTPATH="$(dirname $SCRIPT)"
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cd "$SCRIPTPATH"
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function die() {
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echo "$1" && exit 1
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}
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export MODULEPATH=/gsfs/betke/software/modules:$MODULEPATH
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#module purge
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#module load ddn/mvapich/3.1.4
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#module load betke/hdf5/1.8.20
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#module load betke/netcdf/4.4.1
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#module load betke/ior/git
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#module load betke/netcdf-bench/git-20171206
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#module list
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module purge
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module load ddn/mvapich/3.1.4
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module load betke/hdf5/1.8.20-ddn
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module load betke/netcdf/4.4.1-ddn
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module load betke/ior/git-ddn
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module load betke/netcdf-bench/git-20171206-ddn
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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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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="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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WORKDIR="/gsfs/betke/git/manny-benchmark/scripts"
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cd $WORKDIR
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# Benchmarks to run
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# NCBENCH - NetCDF bench
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# IOR - default IOR and DDN-IOR
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PROG_ARR=("$IOR" "$NCBENCH")
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# Experiment scaling
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# NN_ARR: number of nodes
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# PPN_ARR: processes per node
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NN_ARR=(10 8 6 4 2 1)
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PPN_ARR=(8 6 4 2 1)
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# Data geomentry of int (4 bytes) values
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# Attention: it was too small in the previous experiments
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# TIME, X, Y, Z: size of dimensizion
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# size = time * x * y * z * 4 bytes
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TIME_ARR=(100)
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XGEOM_ARR=($((8 * 2)))
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YGEOM_ARR=($((8 * 8)))
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ZGEOM_ARR=(2560 256 25 4)
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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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# 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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# 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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#####
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SLURMDIR="$(dirname $SLURM_OUTPUT)"
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mkdir -p $SLURMDIR
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TDIR="$(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="$4"
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local l_wml="$(which mpiexec) -ppn 1 -np 1"
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local l_timestamp=$(date +"%Y%m%d_%H%M%S")
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echo "create $l_out"
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touch $l_out
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echo "${l_timestamp}" &>> $l_out
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echo "FILENAME $l_out" &>> $l_out
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rm -rf $l_testdir
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mkdir -p $l_testdir
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lfs setstripe -c $l_stripes $l_testdir
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echo "$l_command" | tee -a $l_out
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#eval "$l_command >> $l_out 2>&1"
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$l_command >> $l_out 2>&1
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lfs getstripe $l_testdir >> $l_out 2>&1
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rm -rf $l_testdir
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}
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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="$2"
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local l_count="${3}"
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local l_prog="$4"
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local l_nn="$5"
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local l_ppn="$6"
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local l_t="$7"
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local l_x="$8"
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local l_y="$9"
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local l_z="${10}"
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local l_type="${11}"
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local l_iface="${12}"
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local l_fs="${13}"
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local l_c="${14}"
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local l_u="${15}"
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local l_f="${16}"
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[[ "${l_c}" == "none" ]] && l_c="notset" || l_c="auto"
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[[ "${l_u}" == "none" ]] && l_u="notset" || l_u="set"
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[[ "${l_f}" == "none" ]] && l_f="notset" || l_f="set"
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local l_out="${l_outdir}/COUNT:${l_count}#TAG:${l_tag}#PROG:${l_prog}#NN:${l_nn}#PPN:${l_ppn}#TYPE:${l_type}#IFACE:${l_iface}#FS:${l_fs}#CHUNKED:${l_c}#FILLED:${l_f}#UNLIMITED:${l_u}#output:$l_t:${l_x}:${l_y}:${l_z}.txt"
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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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for PPN in ${PPN_ARR[@]}; do
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for T in ${TIME_ARR[@]}; do
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for X in ${XGEOM_ARR[@]}; do
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for Y in ${YGEOM_ARR[@]}; do
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for Z in ${ZGEOM_ARR[@]}; do
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for TYPE in ${TYPE_ARR[@]}; do
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for IFACE in ${IFACE_ARR[@]}; do
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for FS in ${FS_ARR[@]}; do
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for CHUNKED in ${CHUNKED_ARR[@]}; do
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for UNLIMITED in ${UNLIMITED_ARR[@]}; do
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for FILL_VALUE in ${FILL_VALUE_ARR[@]}; do
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BENCHFILE=$(makeOutputName $OUTPUTDIR $TIMESTAMP $COUNT $(basename $PROG) $NN $PPN $T $X $Y $Z $TYPE $IFACE $FS ${CHUNKED} ${UNLIMITED} ${FILL_VALUE})
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STRIPES=$(($NN * 2))
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if [ ! -e "${BENCHFILE}" ]; then
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if [[ $TYPE == "ind" && $UNLIMITED == "-u" ]]; then
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echo "skip ${BENCHFILE}, because -t=ind and -u are not supported"
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else
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HOST_LIST=isc17-c02,isc17-c03,isc17-c04,isc17-c05,isc17-c08,isc17-c09,isc17-c10,isc17-c12,isc17-c14,isc17-c23
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#http://www.prace-ri.eu/best-practice-guide-generic-x86-html/
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#"$ADAPTIVE " \
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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 $HOST_LIST "
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WLM+="-genv IM_CLIENT_NET_BUFFERS 32 "
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WLM+="-genv MV2_NUM_HCAS 1 "
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WLM+="-genv MV2_CPU_BINDING_LEVEL core "
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WLM+="-genv MV2_CPU_BINDING_POLICY scatter "
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WLM+="-genv MV2_SHOW_CPU_BINDING 1 "
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#WLM="srun --nodes=$NN --ntasks-per-node=$PPN --ntasks=$(($NN*$PPN))"
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#WLM="mpiexec --allow-run-as-root -npernode $(($NN*$PPN)) -N $PPN" # for DDN IME system
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#WLM="/opt/ddn/mvapich/bin/mpiexec.hydra -ppn $PPN -np $(($PPN*$NN)) -hosts `nodeset -S "," -e manny[600-607]`"
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case "$PROG" in
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$IOR)
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echo "RUN $IOR"
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#set -x
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B=$(($X*$Y*$Z*4))
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S=$T
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if [[ "none" == "${CHUNKED}" ]]; then
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if [[ "none" == "${UNLIMITED}" ]]; then
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if [[ "none" == "${FILL_VALUE}" ]]; then
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$PARAMS="-e -g -z"
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PARAMS="-e -g"
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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"
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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"
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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"
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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"
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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"
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fi
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fi
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fi
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fi
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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" "$STRIPES"
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#set +x
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;;
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$NCBENCH)
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echo "RUN $NCBENCH"
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#set -x
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PARAMS=""
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if [[ "none" != "${CHUNKED}" ]]; then
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PARAMS+="${CHUNKED} "
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fi
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if [[ "none" != "${UNLIMITED}" ]]; then
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PARAMS+="${UNLIMITED} "
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fi
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if [[ "none" != "${FILL_VALUE}" ]]; then
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PARAMS+="${FILL_VALUE} "
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fi
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if [[ "lustre" == "${FS}" ]]; then
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if [[ "mpio" == "${IFACE}" ]]; then
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runTest "$WLM $NCBENCH -f=$LUSTRE_TESTFILE -n=$NN -p=$PPN -d=$T:$(($X*$NN)):$(($Y*$PPN)):$Z -w -r -t=$TYPE $PARAMS" "${BENCHFILE}" "$(dirname ${LUSTRE_TESTFILE})" "$STRIPES" "$DEBUG"
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fi
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elif [[ "fuse" == "${FS}" ]]; then
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if [[ "mpio" == "${IFACE}" ]]; then
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runTest "$WLM $NCBENCH -f=$FUSE_TESTFILE -n=$NN -p=$PPN -d=$T:$(($X*$NN)):$(($Y*$PPN)):$Z -w -r -t=$TYPE $PARAMS" "${BENCHFILE}" "$(dirname ${FUSE_TESTFILE})" "$STRIPES" "$DEBUG"
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fi
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fi
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#set +x
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;;
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*)
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echo "$PROG not supported"
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exit 1
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esac
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fi
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else
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echo "skip $(readlink -f $BENCHFILE), already exists"
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fi
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#exit
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done
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done
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done
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done
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done
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done
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done
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done
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done
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done
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done
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done
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done
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done
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exit 0
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@ -4,7 +4,7 @@ oscs=( $( find /proc/fs/lustre/osc -mindepth 1 -maxdepth 1 -type d ) )
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while [ ! 0 -eq ${#oscs[@]} ]; do
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sync
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echo 3 > /proc/sys/vm/drop_caches
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#echo 3 > /proc/sys/vm/drop_caches
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for i in ${!oscs[@]}; do
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used_mb=$( grep -h used_mb ${oscs[$i]}/osc_cached_mb | cut -d" " -f 2 )
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@ -1,5 +1,6 @@
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#!/bin/bash
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function force_exit {
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echo "Committing suicide (PID $$)"
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exit
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@ -7,13 +8,13 @@ function force_exit {
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trap force_exit SIGINT
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. ./config.sh
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# Provides a list of good hosts (that contains QDR connection)
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function hosts() {
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num="$1"
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#HOST_LIST=( isc17-c04 isc17-c05 isc17-c06 isc17-c18 )
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#HOST_LIST=( isc17-c04 isc17-c05 isc17-c06 isc17-c18 isc17-c01 isc17-c02 isc17-c03 isc17-c07 isc17-c08 isc17-c09 isc17-c11 isc17-c12 isc17-c13 isc17-c14 isc17-c15 isc17-c22 )
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HOST_LIST=( isc17-c04 isc17-c05 isc17-c06 isc17-c07 isc17-c08 isc17-c09 isc17-c11 isc17-c12 isc17-c13 isc17-c14 isc17-c15 isc17-c18 isc17-c22 isc17-c01 isc17-c02 isc17-c03 )
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#HOST_LIST=( isc17-c04 isc17-c05 isc17-c06 isc17-c07 isc17-c08 isc17-c09 isc17-c11 isc17-c12 isc17-c13 isc17-c14 isc17-c15 isc17-c18 isc17-c22 isc17-c01 isc17-c02 isc17-c03 )
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HOST_LIST=( "m11388" )
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hlist=${HOST_LIST[0]}
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for POS in $(seq 1 $(($num - 1))) ; do
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@ -22,28 +23,6 @@ function hosts() {
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echo $hlist
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}
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export MODULEPATH=/esfs/jtacquaviva/software/modules:$MODULEPATH
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module purge
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module load betke/hdf5/1.8.20-ddn
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module load betke/ior/git-ddn
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module list
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LUSTRE_TESTFILE=""
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ITERATIONS=3
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IOR="$(which ior)"
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MPIEXEC="/opt/ddn/mvapich/bin/mpiexec"
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TYPE_ARR=( "read" )
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API_ARR=( "MPIIO" )
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#NN_ARR=( 4 2 1 8 10 16)
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NN_ARR=( 1 2 4 8 16)
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PPN_ARR=( 8 4 1 6 2)
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T_ARR=( $((10*1024*1024)) $((1*1024*1024)) $((100*1024)) $((16*1024)) )
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for COUNT in $(seq 1); do
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for TYPE in ${TYPE_ARR[@]}; do
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@ -54,53 +33,59 @@ for API in ${API_ARR[@]}; do
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BENCHFILE="./output_v2/COUNT:$COUNT#NN:$NN#PPN:$PPN#API:$API#T:$T#TYPE:$TYPE.txt"
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if [ ! -e "${BENCHFILE}" ]; then
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OUTDIR="$(dirname $BENCHFILE)"
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if [ ! -d $OUTDIR ]; then
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mkdir $OUTDIR
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fi
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#if [ ! -e "${BENCHFILE}" ]; then
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if true; then
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OUTDIR="$(dirname $BENCHFILE)"
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[ ! -d $OUTDIR ] && mkdir $OUTDIR
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touch $BENCHFILE
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IOR_API_OPTS=""
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#$MPIEXEC $MPIEXEC_PARAMS ./drop_caches.sh
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IOR_TYPE_OPTS=""
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if [[ "read" == $TYPE ]]; then
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IOR_TYPE_OPTS="-r"
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$MPIEXEC $MPIEXEC_PARAMS /esfs/jtacquaviva/git/ime-evaluation/drop_caches.sh
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if [[ "POSIX" == $API ]]; then
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IOR_API_OPTS="-F"
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LUSTRE_TESTFILE="/esfs/jtacquaviva/indread$NN/file"
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elif [[ "MPIIO" == $API ]]; then
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IOR_API_OPTS=""
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LUSTRE_TESTFILE="/esfs/jtacquaviva/sharedread$NN/file"
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fi
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LUSTRE_TESTFILE="$TD/sharedread$NN/file"
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TESTDIR="$(dirname $LUSTRE_TESTFILE)"
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lfs getstripe $TESTDIR | tee -a $BENCHFILE
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|
||||
elif [[ "write" == $TYPE ]]; then
|
||||
IOR_TYPE_OPTS="-w"
|
||||
LUSTRE_TESTFILE="/esfs/jtacquaviva/ioperf/file_write"
|
||||
|
||||
LUSTRE_TESTFILE="$TD/sharedwrite/file"
|
||||
TESTDIR="$(dirname $LUSTRE_TESTFILE)"
|
||||
if [ -d $TESTDIR ]; then
|
||||
rm -r $TESTDIR
|
||||
fi
|
||||
mkdir -p $TESTDIR
|
||||
[ -d $TESTDIR ] && rm -r $TESTDIR || mkdir -p $TESTDIR
|
||||
lfs setstripe -c $((2 * $NN)) $TESTDIR
|
||||
lfs getstripe $TESTDIR | tee -a $BENCHFILE
|
||||
fi
|
||||
|
||||
|
||||
IOR_PARAMS="-i $ITERATIONS -s 1 -t $T -b $((4800 * 1024 * 1024 * 32 / $PPN)) -D $((30)) -a $API $IOR_API_OPTS -e -g -z -k"
|
||||
ENVVAR="-genv MV2_NUM_HCAS 1 -genv MV2_CPU_BINDING_LEVEL core -genv MV2_CPU_BINDING_POLICY scatter"
|
||||
MPIEXEC_PARAMS=" -ppn $PPN -np $(($NN * $PPN)) $ENVVAR --hosts $(hosts $NN) "
|
||||
IOR_PARAMS="-i 3 "
|
||||
IOR_PARAMS+="-s 1 -t $T -b $((4800 * 1024 * 1024 * 32 / $PPN)) "
|
||||
IOR_PARAMS+="-D 60 -O stoneWallingWearOut=1 "
|
||||
IOR_PARAMS+="-a $API "
|
||||
IOR_PARAMS+="-e -g -z -k -o $LUSTRE_TESTFILE $IOR_TYPE_OPTS "
|
||||
|
||||
if [[ "isc17" == ${hostname:0:5} ]]; then
|
||||
MPIEXEC_PARAMS=" -ppn $PPN -np $(($NN * $PPN)) --hosts $(hosts $NN) -wdir $WD "
|
||||
MPIEXEC_PARAMS+="-genv MV2_NUM_HCAS 1 "
|
||||
MPIEXEC_PARAMS+="-genv MV2_CPU_BINDING_LEVEL core "
|
||||
MPIEXEC_PARAMS+="-genv MV2_CPU_BINDING_POLICY scatter "
|
||||
elif [[ "m" == ${hostname:0:1} ]]; then
|
||||
#MPIEXEC_PARAMS=" -ppn $PPN -n $(($NN * $PPN)) --host $(hosts $NN)"
|
||||
MPIEXEC_PARAMS=" -ppn $PPN -n $(($NN * $PPN)) -wdir $WD"
|
||||
else
|
||||
echo "Cluster $hostname is not supported. Quitting."
|
||||
exit 1
|
||||
fi
|
||||
|
||||
(
|
||||
(
|
||||
set -x
|
||||
$MPIEXEC $MPIEXEC_PARAMS $IOR $IOR_PARAMS -o $LUSTRE_TESTFILE $IOR_TYPE_OPTS | tee -a $BENCHFILE
|
||||
$MPIEXEC $MPIEXEC_PARAMS ./ior_wrapper.sh "$IOR_PARAMS" "$BENCHFILE" | tee -a $BENCHFILE
|
||||
#$MPIEXEC $MPIEXEC_PARAMS $IOR $IOR_PARAMS | tee -a $BENCHFILE
|
||||
set +x
|
||||
) 2> >(tee -a $BENCHFILE)
|
||||
else
|
||||
echo "skip $(readlink -f $BENCHFILE), already exists"
|
||||
fi
|
||||
) 2> >(tee -a $BENCHFILE)
|
||||
else
|
||||
echo "skip $(readlink -f $BENCHFILE), already exists"
|
||||
fi
|
||||
|
||||
done
|
||||
done
|
||||
|
|
|
|||
|
|
@ -1,41 +0,0 @@
|
|||
#!/bin/bash
|
||||
|
||||
export MODULEPATH=/esfs/jtacquaviva/software/modules:$MODULEPATH
|
||||
|
||||
module purge
|
||||
module load betke/hdf5/1.8.20-ddn
|
||||
module load betke/ior/git-ddn
|
||||
module list
|
||||
|
||||
IOTYPE="shared"
|
||||
NN=16
|
||||
NODES='isc17-c02,isc17-c03,isc17-c04,isc17-c05,isc17-c06,isc17-c07,isc17-c08,isc17-c09,isc17-c11,isc17-c12,isc17-c13,isc17-c14,isc17-c15,isc17-c18,isc17-c22,isc17-c01'
|
||||
|
||||
if [[ "shared" == $IOTYPE ]]; then
|
||||
LUSTRE_TESTFILE="/esfs/jtacquaviva/sharedread${NN}/file"
|
||||
elif [[ "posix" == $IOTYPE ]]; then
|
||||
LUSTRE_TESTFILE="/esfs/jtacquaviva/indread${NN}/file"
|
||||
fi
|
||||
|
||||
TESTDIR="$(dirname $LUSTRE_TESTFILE)"
|
||||
mkdir $TESTDIR
|
||||
lfs setstripe -c $(($NN * 2)) $TESTDIR
|
||||
|
||||
ITERATIONS=1
|
||||
|
||||
if [[ "shared" == $IOTYPE ]]; then
|
||||
IOR="$(which ior) -i $ITERATIONS -s 1 -t $((16 * 1024 * 1024)) -b $((4800 * 1024 * 1024 * 32 / 8)) -o $LUSTRE_TESTFILE -a MPIIO -e -g -k -w"
|
||||
elif [[ "posix" == $IOTYPE ]]; then
|
||||
IOR="$(which ior) -i $ITERATIONS -s 1 -t $((16 * 1024 * 1024)) -b $((4800 * 1024 * 1024 * 32)) -o $LUSTRE_TESTFILE -a POSIX -F -e -g -k -w"
|
||||
fi
|
||||
|
||||
|
||||
ENVVAR="-genv MV2_NUM_HCAS 1 -genv MV2_CPU_BINDING_LEVEL core -genv MV2_CPU_BINDING_POLICY scatter"
|
||||
MPIEXEC="/opt/ddn/mvapich/bin/mpiexec -ppn 8 -np $((8*$NN)) $ENVVAR -hosts isc17-c04,isc17-c05"
|
||||
|
||||
set -x
|
||||
$MPIEXEC $IOR
|
||||
#$MPIEXEC $IOR -r -D $((5*60))
|
||||
set +x
|
||||
#rm $LUSTRE_TESTFILE
|
||||
|
||||
|
|
@ -1,9 +1,10 @@
|
|||
#!/bin/bash
|
||||
|
||||
. ./config.sh
|
||||
|
||||
NN_ARR=( 4 2 1 8 10 12 14 16)
|
||||
PPN_ARR=( 8 6 4 2 1 )
|
||||
T_ARR=( $((10*1024*1024)) $((1*1024*1024)) $((100*1024)) $((16*1024)) )
|
||||
#NN_ARR=( 4 2 1 8 10 12 14 16)
|
||||
#PPN_ARR=( 8 6 4 2 1 )
|
||||
#T_ARR=( $((10*1024*1024)) $((1*1024*1024)) $((100*1024)) $((16*1024)) )
|
||||
|
||||
|
||||
res="OK"
|
||||
|
|
|
|||
Loading…
Reference in New Issue