273 lines
8.3 KiB
Bash
Executable File
273 lines
8.3 KiB
Bash
Executable File
#!/usr/bin/bash
|
|
|
|
#!/usr/bin/bash -x
|
|
|
|
MYHOME=/home/e29005
|
|
test_dir=`pwd -P`
|
|
mck_dir=${MYHOME}/project/os/install
|
|
uti_dir_lin=${MYHOME}/project/uti/install_linux
|
|
uti_dir_mck=${MYHOME}/project/uti/install_mckernel
|
|
|
|
exe=`basename $0 | sed 's/\.sh//'`
|
|
|
|
stop=0
|
|
reboot=0
|
|
go=0
|
|
|
|
interactive=0
|
|
pjsub=0
|
|
gdb=0
|
|
disable_syscall_intercept=0
|
|
mck=0
|
|
nnodes=2
|
|
LASTNODE=8196
|
|
use_hfi=0
|
|
omp_num_threads=32
|
|
ppn=4
|
|
|
|
while getopts srgc:ml:N:P:o:hGI:ipL: OPT
|
|
do
|
|
case ${OPT} in
|
|
s) stop=1
|
|
;;
|
|
r) reboot=1
|
|
;;
|
|
g) go=1
|
|
;;
|
|
m) mck=1
|
|
;;
|
|
N) nnodes=$OPTARG
|
|
;;
|
|
P) ppn=$OPTARG
|
|
;;
|
|
o) omp_num_threads=$OPTARG
|
|
;;
|
|
h) use_hfi=1
|
|
;;
|
|
G) gdb=1
|
|
;;
|
|
I) disable_syscall_intercept=$OPTARG
|
|
;;
|
|
i) interactive=1
|
|
;;
|
|
p) pjsub=1
|
|
;;
|
|
L) LASTNODE=$OPTARG
|
|
;;
|
|
*) echo "invalid option -${OPT}" >&2
|
|
exit 1
|
|
esac
|
|
done
|
|
|
|
nprocs=$((ppn * nnodes))
|
|
nodes=`echo $(seq -s ",c" $(($LASTNODE + 1 - $nnodes)) $LASTNODE) | sed 's/^/c/'`
|
|
|
|
# vertical cut, excluding phys loaded with Linux tasks
|
|
uti_cpu_set_lin=1,69,137,205,18-19,86-87,154-155,222-223
|
|
exclude_list=0-1,68-69,136-137,204-205,18-19,86-87,154-155,222-223
|
|
#64-67,132-135,200-203,268-271
|
|
|
|
uti_cpu_set_mck=1,69,137,205,18-19,86-87,154-155,222-223
|
|
|
|
# horizontal cut, excluding phys loaded with Linux tasks for mckernel
|
|
#uti_cpu_set_lin=204-271
|
|
#uti_cpu_set_mck=1-67
|
|
|
|
if [ $mck -eq 0 ]; then
|
|
uti_cpu_set_str="export UTI_CPU_SET=$uti_cpu_set_lin"
|
|
i_mpi_pin_processor_exclude_list="export I_MPI_PIN_PROCESSOR_EXCLUDE_LIST=$exclude_list"
|
|
else
|
|
uti_cpu_set_str="export UTI_CPU_SET=$uti_cpu_set_mck"
|
|
i_mpi_pin_processor_exclude_list=
|
|
fi
|
|
|
|
if [ ${mck} -eq 1 ]; then
|
|
i_mpi_pin=off
|
|
i_mpi_pin_domain=
|
|
i_mpi_pin_order=
|
|
# if [ $omp_num_threads -eq 1 ]; then
|
|
# # Avoid binding main thread and uti thread to one CPU
|
|
kmp_affinity="export KMP_AFFINITY=disabled"
|
|
# else
|
|
# # Bind rank to OMP_NUM_THREAD-sized CPU-domain
|
|
# kmp_affinity="export KMP_AFFINITY=granularity=thread,scatter"
|
|
# fi
|
|
else
|
|
i_mpi_pin=on
|
|
domain=$omp_num_threads # Use 32 when you want to match mck's -n division
|
|
i_mpi_pin_domain="export I_MPI_PIN_DOMAIN=$domain"
|
|
i_mpi_pin_order="export I_MPI_PIN_ORDER=compact"
|
|
kmp_affinity="export KMP_AFFINITY=granularity=thread,scatter"
|
|
fi
|
|
|
|
echo nprocs=$nprocs nnodes=$nnodes ppn=$ppn nodes=$nodes domain=$domain
|
|
|
|
if [ ${mck} -eq 1 ]; then
|
|
makeopt="UTI_DIR=$uti_dir_mck"
|
|
use_mck="#PJM -x MCK=$mck_dir"
|
|
mck_mem="#PJM -x MCK_MEM=32G@0,8G@1"
|
|
mcexec="${mck_dir}/bin/mcexec"
|
|
nmcexecthr=$((omp_num_threads + 4))
|
|
mcexecopt="-n $ppn --uti-use-last-cpu" # -t $nmcexecthr
|
|
|
|
if [ ${use_hfi} -eq 1 ]; then
|
|
mcexecopt="--enable-hfi1 $mcexecopt"
|
|
fi
|
|
|
|
if [ $disable_syscall_intercept -eq 0 ]; then
|
|
mcexecopt="--enable-uti $mcexecopt"
|
|
fi
|
|
|
|
else
|
|
offline=`PDSH_SSH_ARGS_APPEND="-tt -q" pdsh -t 2 -w $nodes lscpu \| grep Off 2>&1 | dshbak -c | grep Off`
|
|
if [ "$offline" != "" ]; then
|
|
echo "Error: Some CPUs are offline: $offline"
|
|
exit
|
|
fi
|
|
|
|
makeopt="UTI_DIR=$uti_dir_lin"
|
|
use_mck=
|
|
mck_mem=
|
|
mcexec=
|
|
mcexecopt=
|
|
fi
|
|
|
|
if [ $gdb -eq 1 ]; then
|
|
enable_x="-enable-x"
|
|
gdbcmd="xterm -display localhost:11 -hold -e gdb -ex run --args"
|
|
fi
|
|
|
|
if [ $interactive -eq 1 ]; then
|
|
i_mpi_hydra_bootstrap_exec=
|
|
i_mpi_hydra_bootstrap=
|
|
hosts=
|
|
opt_dir=/opt/intel
|
|
ssh=
|
|
else
|
|
# PDSH_SSH_ARGS_APPEND="-tt -q" pdsh -t 2 -w $nodes bash -c \'if \[ \"\`cat /etc/mtab \| while read line\; do cut -d\" \" -f 2\; done \| grep /work\`\" == \"\" \]\; then sudo mount /work\; fi\'
|
|
i_mpi_hydra_bootstrap_exec="export I_MPI_HYDRA_BOOTSTRAP_EXEC=/usr/bin/ssh"
|
|
i_mpi_hydra_bootstrap="export I_MPI_HYDRA_BOOTSTRAP=ssh"
|
|
hosts="-hosts $nodes"
|
|
opt_dir=/home/opt/local/cores/intel
|
|
ssh="ssh -A c$LASTNODE"
|
|
fi
|
|
|
|
# If using ssh
|
|
# Latest versions are: 1.163, 2.199, 3.222
|
|
if [ $pjsub -eq 0 ] && [ $interactive -eq 0 ]; then
|
|
compilervars=". ${opt_dir}/compilers_and_libraries_2018.2.199/linux/bin/compilervars.sh intel64"
|
|
else
|
|
compilervars=
|
|
fi
|
|
|
|
if [ ${stop} -eq 1 ]; then
|
|
if [ ${mck} -eq 1 ]; then
|
|
PDSH_SSH_ARGS_APPEND="-tt -q" pdsh -t 2 -w $nodes \
|
|
/usr/sbin/pidof mcexec \| xargs -r sudo kill -9
|
|
PDSH_SSH_ARGS_APPEND="-tt -q" pdsh -t 2 -w $nodes \
|
|
/usr/sbin/pidof $exe \| xargs -r sudo kill -9
|
|
PDSH_SSH_ARGS_APPEND="-tt -q" pdsh -t 2 -w $nodes \
|
|
sudo ${mck_dir}/sbin/mcstop+release.sh
|
|
else
|
|
PDSH_SSH_ARGS_APPEND="-tt -q" pdsh -t 2 -w $nodes \
|
|
/usr/sbin/pidof $exe \| xargs -r sudo kill -9
|
|
fi
|
|
fi
|
|
|
|
if [ ${reboot} -eq 1 ]; then
|
|
if [ ${mck} -eq 1 ]; then
|
|
if hostname | grep ofp &>/dev/null; then
|
|
|
|
# -h: Hide idle thread to prevent KNL CPU from mux-ing resource and halving throughput
|
|
PDSH_SSH_ARGS_APPEND="-tt -q" pdsh -t 2 -w $nodes \
|
|
sudo ${mck_dir}/sbin/mcreboot.sh -h -O -c 2-17,70-85,138-153,206-221,20-35,88-103,156-171,224-239,36-51,104-119,172-187,240-255,52-67,120-135,188-203,256-271 -r 2-5,70-73,138-141,206-209:0+6-9,74-77,142-145,210-213:1+10-13,78-81,146-149,214-217:68+14-17,82-85,150-153,218-221:69+20-23,88-91,156-159,224-227:136+24-27,92-95,160-163,228-231:137+28-31,96-99,164-167,232-235:204+32-35,100-103,168-171,236-239:205+36-39,104-107,172-175,240-243:18+40-43,108-111,176-179,244-247:19+44-47,112-115,180-183,248-251:86+48-51,116-119,184-187,252-255:87+52-55,120-123,188-191,256-259:154+56-59,124-127,192-195,260-263:155+60-63,128-131,196-199,264-267:222+64-67,132-135,200-203,268-271:223 -m 32G@0,12G@1
|
|
|
|
# perl -e 'for ($i=0;$i<68;$i++){if($i>0){print "+";}printf("%d,%d,%d:%d", $i+68,$i+136,$i+204,$i);}'
|
|
|
|
# PDSH_SSH_ARGS_APPEND="-tt -q" pdsh -t 2 -w $nodes \
|
|
# sudo ${mck_dir}/sbin/mcreboot.sh -O -c 68-271 -r 68,136,204:0+69,137,205:1+70,138,206:2+71,139,207:3+72,140,208:4+73,141,209:5+74,142,210:6+75,143,211:7+76,144,212:8+77,145,213:9+78,146,214:10+79,147,215:11+80,148,216:12+81,149,217:13+82,150,218:14+83,151,219:15+84,152,220:16+85,153,221:17+86,154,222:18+87,155,223:19+88,156,224:20+89,157,225:21+90,158,226:22+91,159,227:23+92,160,228:24+93,161,229:25+94,162,230:26+95,163,231:27+96,164,232:28+97,165,233:29+98,166,234:30+99,167,235:31+100,168,236:32+101,169,237:33+102,170,238:34+103,171,239:35+104,172,240:36+105,173,241:37+106,174,242:38+107,175,243:39+108,176,244:40+109,177,245:41+110,178,246:42+111,179,247:43+112,180,248:44+113,181,249:45+114,182,250:46+115,183,251:47+116,184,252:48+117,185,253:49+118,186,254:50+119,187,255:51+120,188,256:52+121,189,257:53+122,190,258:54+123,191,259:55+124,192,260:56+125,193,261:57+126,194,262:58+127,195,263:59+128,196,264:60+129,197,265:61+130,198,266:62+131,199,267:63+132,200,268:64+133,201,269:65+134,202,270:66+135,203,271:67 -m 32G@0,12G@1
|
|
else
|
|
echo "unkwon host type"
|
|
exit 1
|
|
fi
|
|
else
|
|
:
|
|
fi
|
|
fi
|
|
|
|
(
|
|
cat <<EOF
|
|
#!/bin/sh
|
|
|
|
#PJM -L rscgrp=$rg
|
|
#PJM -L node=$nnodes
|
|
#PJM --mpi proc=$nprocs
|
|
#PJM -L elapse=$elapse
|
|
#PJM -L proc-crproc=16384
|
|
#PJM -g gg10
|
|
#PJM -j
|
|
#PJM -s
|
|
$use_mck
|
|
$mck_mem
|
|
|
|
$i_mpi_hydra_bootstrap_exec
|
|
$i_mpi_hydra_bootstrap
|
|
|
|
export OMP_NUM_THREADS=$omp_num_threads
|
|
#export OMP_STACKSIZE=64M
|
|
export KMP_BLOCKTIME=1
|
|
export PSM2_RCVTHREAD=0
|
|
|
|
$uti_cpu_set_str
|
|
export I_MPI_PIN=$i_mpi_pin
|
|
$i_mpi_pin_processor_exclude_list
|
|
$i_mpi_pin_domain
|
|
$i_mpi_pin_order
|
|
$kmp_affinity
|
|
|
|
export HFI_NO_CPUAFFINITY=1
|
|
export I_MPI_COLL_INTRANODE_SHM_THRESHOLD=4194304
|
|
export I_MPI_FABRICS=shm:tmi
|
|
export PSM2_RCVTHREAD=0
|
|
export I_MPI_TMI_PROVIDER=psm2
|
|
export I_MPI_FALLBACK=0
|
|
export PSM2_MQ_RNDV_HFI_WINDOW=4194304
|
|
export PSM2_MQ_EAGER_SDMA_SZ=65536
|
|
export PSM2_MQ_RNDV_HFI_THRESH=200000
|
|
|
|
export MCKERNEL_RLIMIT_STACK=32M,16G
|
|
export KMP_STACKSIZE=64m
|
|
#export KMP_HW_SUBSET=64c,1t
|
|
|
|
export I_MPI_ASYNC_PROGRESS=off
|
|
|
|
#export I_MPI_STATS=native:20,ipm
|
|
#export I_MPI_STATS=ipm
|
|
#export I_MPI_DEBUG=4
|
|
#export I_MPI_HYDRA_DEBUG=on
|
|
|
|
ulimit -c unlimited
|
|
|
|
$compilervars
|
|
mpiexec.hydra -n $nprocs -ppn $ppn $hosts $ilpopt $enable_x $gdbcmd $mcexec $mcexecopt ${test_dir}/$exe -p $ppn -I $disable_syscall_intercept
|
|
#-l
|
|
|
|
EOF
|
|
) > ./job.sh
|
|
chmod u+x ./job.sh
|
|
|
|
if [ ${go} -eq 1 ]; then
|
|
if [ $pjsub -eq 1 ]; then
|
|
pjsub ./job.sh
|
|
else
|
|
if [ $interactive -eq 0 ]; then
|
|
. ${opt_dir}/compilers_and_libraries_2018.2.199/linux/bin/compilervars.sh intel64
|
|
fi
|
|
rm ./$exe
|
|
make $makeopt ./$exe
|
|
PDSH_SSH_ARGS_APPEND="-tt -q" pdsh -t 2 -w $nodes \
|
|
/usr/sbin/pidof $exe \| xargs -r sudo kill -9
|
|
$ssh ${test_dir}/job.sh
|
|
fi
|
|
fi
|