From 528cb4c37981365f3390248223bac37943df674f Mon Sep 17 00:00:00 2001 From: Jered Dominguez-Trujillo Date: Thu, 14 Mar 2024 16:29:23 -0600 Subject: [PATCH 01/12] Submodule update for spatter --- .gitmodules | 2 +- microbenchmarks/spatter | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/.gitmodules b/.gitmodules index 699d1538..5f93b829 100644 --- a/.gitmodules +++ b/.gitmodules @@ -20,7 +20,7 @@ [submodule "microbenchmarks/spatter"] path = microbenchmarks/spatter url = git@github.com:lanl/spatter.git - branch = main + branch = atomics [submodule "miniem_build/spack"] path = miniem_build/spack url = git@github.com:spack/spack diff --git a/microbenchmarks/spatter b/microbenchmarks/spatter index e77ca222..50699c45 160000 --- a/microbenchmarks/spatter +++ b/microbenchmarks/spatter @@ -1 +1 @@ -Subproject commit e77ca222f6e0f0ec6cc8d4b7544d72a39e347a65 +Subproject commit 50699c450ba0ae98e19cb2219cd243b65ca344ee From f6113cd3b2f6070b4ff828eeed7d8d7b288c3600 Mon Sep 17 00:00:00 2001 From: Jered Dominguez-Trujillo Date: Thu, 14 Mar 2024 16:55:36 -0600 Subject: [PATCH 02/12] Data from atomic scatter on H100 --- .../09_Microbenchmarks/M2_SPATTER/SPATTER.rst | 7 +++-- .../09_Microbenchmarks/M2_SPATTER/h100.gp | 4 +-- .../M2_SPATTER/h100_throughput_asteroid_5.csv | 24 ++++++++--------- .../M2_SPATTER/h100_throughput_asteroid_9.csv | 26 +++++++++---------- 4 files changed, 32 insertions(+), 29 deletions(-) diff --git a/doc/sphinx/09_Microbenchmarks/M2_SPATTER/SPATTER.rst b/doc/sphinx/09_Microbenchmarks/M2_SPATTER/SPATTER.rst index 076e93fb..ab2d73e3 100644 --- a/doc/sphinx/09_Microbenchmarks/M2_SPATTER/SPATTER.rst +++ b/doc/sphinx/09_Microbenchmarks/M2_SPATTER/SPATTER.rst @@ -170,6 +170,7 @@ The scripts/scaling.sh script has the following options (a scripts/mpirunscaling * n: User-defined run name (for saving results) * c: Core binding (optional, default: off) * g: Toggle GPU (optional, default: off) +* m: Toggle Atomics (optional, default: off) * r: Toggle count parameter on pattern with countlist (default: off) * s: Toggle pattern size limit (optional, default: off for weak scaling, will be overridden to on for strong scaling) * t: Toggle throughput plot generation (optional, default: off) @@ -279,16 +280,18 @@ xRAGE Asteroid Spatter Pattern 9 Throughput experiment for the pattern in patterns/xrage/asteroid/spatter9.json. Results will be found in spatter.strongscaling/H100/xrage/asteroid/spatter9/ and Figures will be found in figures/spatter.strongscaling/H100/xrage/asteroid/spatter9/ +Note that we need to enable atomics since this is a scatter pattern which overwrites the same location multiple times. + .. code-block:: bash - bash scripts/scaling.sh -a xrage -p asteroid -f spatter9 -n H100 -g -s -r -t + bash scripts/scaling.sh -a xrage -p asteroid -f spatter9 -n H100 -g -s -r -t -m .. .. csv-table:: Spatter Throughput (MB/s) on H100 xRAGE Asteroid Pattern 9 :file: h100_throughput_asteroid_9.csv :align: center - :widths: 5, 5 + :widths: 5, 5, 5 :header-rows: 1 .. figure:: h100_throughput_asteroid_9.png diff --git a/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100.gp b/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100.gp index eff7d426..dc6ff779 100644 --- a/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100.gp +++ b/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100.gp @@ -6,7 +6,7 @@ set xlabel "Data Transferred (MB)" set ylabel "Figure of Merit (Total Bandwidth MB/s)" set xrange [4:10000] -set nokey +set key center bottom set logscale x 2 @@ -29,4 +29,4 @@ plot "h100_throughput_asteroid_5.csv" using 1:2 with linespoints linestyle 1 set output "h100_throughput_asteroid_9.png" set ylabel "Figure of Merit (Total Bandwidth MB/s)" -plot "h100_throughput_asteroid_9.csv" using 1:2 with linespoints linestyle 1 +plot "h100_throughput_asteroid_9.csv" using 1:2 with linespoints linestyle 1, "" using 1:3 with linespoints linestyle2 diff --git a/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100_throughput_asteroid_5.csv b/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100_throughput_asteroid_5.csv index 16e62307..bbf3e6b5 100644 --- a/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100_throughput_asteroid_5.csv +++ b/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100_throughput_asteroid_5.csv @@ -1,13 +1,13 @@ Data Transferred (MB),Total Bandwidth (MB/s) -4.194304,704688.15 -8.388608,1074360.68 -16.777216,1464491.66 -33.554432,1555750.72 -66.951744,1591058.55 -133.903488,1686611.83 -267.806976,1757448.15 -535.613952,1781199.94 -1071.227904,1806381.99 -2142.455808,1816133.04 -4284.911616,1825467.10 -8569.823232,1825579.10 +4.194304,728177.77 +8.388608,1083239.69 +16.777216,1476867.62 +33.554432,1730323.39 +66.951744,1629471.97 +133.903488,1743534.92 +267.806976,1821320.63 +535.613952,1861425.36 +1071.227904,1882041.47 +2142.455808,1893056.87 +4284.911616,1898720.78 +8569.823232,1901308.97 diff --git a/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100_throughput_asteroid_9.csv b/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100_throughput_asteroid_9.csv index 6aaa9790..3b027eb9 100644 --- a/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100_throughput_asteroid_9.csv +++ b/doc/sphinx/09_Microbenchmarks/M2_SPATTER/h100_throughput_asteroid_9.csv @@ -1,13 +1,13 @@ -Data Transferred (MB),Total Bandwidth (MB/s) -4.194304,598502.3 -8.388608,851116.92 -16.777216,890132.42 -33.554432,910222.19 -53.314432,974313.46 -106.628864,1026540.96 -213.257728,1055982.28 -426.515456,1072811.37 -853.030912,1082922.36 -1706.061824,1084706.97 -3412.123648,1088388.35 -6824.247296,1090118.62 +Data Transferred (MB),Total Bandwidth without Atomics (MB/s),Total Bandwidth with Atomics (MB/s) +4.194304,615361.48,492751.9 +8.388608,916587.43,677374.66 +16.777216,1044398.45,786038.96 +33.554432,1025000.99,741567.16 +53.314432,1098994.71,792614.68 +106.628864,1167128.51,831375.29 +213.257728,1200991.87,853850.6 +426.515456,1229803.27,866450.52 +853.030912,1239870.47,872005.75 +1706.061824,1243804.45,875384.74 +3412.123648,1246581.74,876456.83 +6824.247296,1248311.13,876824.44 From 675a68e7ff6c6586fd0be67858e7e0050dd0c657 Mon Sep 17 00:00:00 2001 From: "Galen M. Shipman" Date: Thu, 14 Mar 2024 21:26:47 -0600 Subject: [PATCH 03/12] update parthenon to prior hash --- parthenon | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/parthenon b/parthenon index faf912ae..277df3c3 160000 --- a/parthenon +++ b/parthenon @@ -1 +1 @@ -Subproject commit faf912ae17aa0043f2018e86ffe33a8af293451c +Subproject commit 277df3c3461045c144430640a701f834ba5299d7 From 827cfc358048c8afad23f9beacbb14499ebee7a0 Mon Sep 17 00:00:00 2001 From: Anthony Agelastos Date: Thu, 14 Mar 2024 22:02:34 -0600 Subject: [PATCH 04/12] updated numbers on crossroads --- doc/sphinx/08_sparta/ats3--15.csv | 10 +- doc/sphinx/08_sparta/ats3--35.csv | 10 +- doc/sphinx/08_sparta/ats3--55.csv | 10 +- doc/sphinx/08_sparta/ats3--all--stats.csv | 30 +- doc/sphinx/08_sparta/ats3--all.csv | 2853 ++++++----------- doc/sphinx/08_sparta/metrics_compute.sh | 11 +- doc/sphinx/08_sparta/metrics_rollup.sh | 2 +- .../08_sparta/run-crossroads-mapcpu-memory.sh | 189 ++ .../sbatch-crossroads-mapcpu-check.sh | 23 + .../sbatch-crossroads-mapcpu-memory.sh | 34 +- doc/sphinx/08_sparta/sparta_stats.py | 2 +- 11 files changed, 1232 insertions(+), 1942 deletions(-) create mode 100755 doc/sphinx/08_sparta/run-crossroads-mapcpu-memory.sh create mode 100755 doc/sphinx/08_sparta/sbatch-crossroads-mapcpu-check.sh diff --git a/doc/sphinx/08_sparta/ats3--15.csv b/doc/sphinx/08_sparta/ats3--15.csv index bb82f52f..755954ff 100644 --- a/doc/sphinx/08_sparta/ats3--15.csv +++ b/doc/sphinx/08_sparta/ats3--15.csv @@ -1,6 +1,6 @@ Processing Elements per NUMA Domain,Actual,Ideal,Memory (GiB) -7.1%,269.4,269.4,33.0 -28.6%,1020.7,1077.8,34.2 -50.0%,1671.3,1886.1,35.9 -78.6%,2099.6,2963.9,37.6 -100.0%,2260.2,3772.2,38.4 +7.1%,290.62,290.62,32.9 +28.6%,1113.17,1162.48,34.4 +50.0%,1805.52,2034.33,36.0 +78.6%,2235.39,3196.81,37.7 +100.0%,2389.00,4068.66,38.2 diff --git a/doc/sphinx/08_sparta/ats3--35.csv b/doc/sphinx/08_sparta/ats3--35.csv index 665641ac..84fa871a 100644 --- a/doc/sphinx/08_sparta/ats3--35.csv +++ b/doc/sphinx/08_sparta/ats3--35.csv @@ -1,6 +1,6 @@ Processing Elements per NUMA Domain,Actual,Ideal,Memory (GiB) -7.1%,280.4,280.4,63.1 -28.6%,1077.6,1121.6,65.4 -50.0%,1695.9,1962.8,67.7 -78.6%,2243.4,3084.4,71.4 -100.0%,2394.9,3925.6,70.9 +7.1%,301.72,301.72,63.1 +28.6%,1167.16,1206.89,65.3 +50.0%,1846.06,2112.05,67.6 +78.6%,2360.18,3318.93,71.5 +100.0%,2488.92,4224.10,70.8 diff --git a/doc/sphinx/08_sparta/ats3--55.csv b/doc/sphinx/08_sparta/ats3--55.csv index 7158f5a9..556d9264 100644 --- a/doc/sphinx/08_sparta/ats3--55.csv +++ b/doc/sphinx/08_sparta/ats3--55.csv @@ -1,6 +1,6 @@ Processing Elements per NUMA Domain,Actual,Ideal,Memory (GiB) -7.1%,277.8,277.8,96.1 -28.6%,1071.9,1111.0,97.5 -50.0%,1703.8,1944.3,98.4 -78.6%,2247.5,3055.4,102.9 -100.0%,2397.4,3888.7,103.5 +7.1%,303.76,303.76,96.2 +28.6%,1174.55,1215.04,97.2 +50.0%,1843.09,2126.32,98.4 +78.6%,2380.88,3341.37,102.9 +100.0%,2522.14,4252.65,103.5 diff --git a/doc/sphinx/08_sparta/ats3--all--stats.csv b/doc/sphinx/08_sparta/ats3--all--stats.csv index 5e7e56dc..1fd67322 100644 --- a/doc/sphinx/08_sparta/ats3--all--stats.csv +++ b/doc/sphinx/08_sparta/ats3--all--stats.csv @@ -1,16 +1,16 @@ "Key","Min","Mean","Max","Stdev","Range","Variability" -"055|01",31.494019647957263,266.3043538709467,277.76099701790315,30.584597573836945,246.2669773699459,0.9247576083164186 -"015|04",99.38365484165858,999.4351859485635,1020.73717743512,115.86454624790586,921.3535225934614,0.9218742101009835 -"055|04",103.63519630075864,1008.9545398402469,1071.916479457648,148.4463253269125,968.2812831568893,0.9596877212230023 -"035|14",122.4211308140779,2336.7163139821246,2394.89122245351,203.22276582343997,2272.470091639432,0.9725057671920787 -"055|14",122.11570310922049,2315.9872534844358,2397.422401397938,247.9676346488511,2275.306698288717,0.982434896766157 -"015|11",123.95649288844751,2051.7789539775727,2099.607052584329,179.13260659099788,1975.6505596958814,0.962896395767142 -"015|07",126.09987413299672,1637.2583066688057,1671.253625329758,138.57234796461265,1545.1537511967613,0.9437446399893722 -"055|11",126.52071740538865,2136.799696464497,2247.529837689088,187.75452230478484,2121.0091202836993,0.9926101748297116 -"015|01",233.86375332102455,264.2594036806839,269.4414291245592,3.9607683471920536,35.577675803534646,0.13463163583962634 -"035|01",265.95914631078705,275.5612197899514,280.40051575320973,1.6747482025065743,14.441369442422683,0.052407118292736275 -"035|04",988.4104666613176,1066.8470774213424,1077.5850260474895,13.950246481844852,89.17455938617184,0.08358701192837695 -"055|07",1386.9565357238616,1643.098015405481,1703.8334765939762,35.9813496225486,316.8769408701146,0.1928533403966873 -"035|07",1563.7257891059294,1678.4072329491837,1695.902794137586,18.96081678758106,132.17700503165656,0.07875145104052254 -"035|11",1913.0355013267033,2190.234641698925,2243.3935977679525,41.235998906881406,330.35809644124924,0.15083228534135343 -"015|14",2153.41598681825,2227.776956290854,2260.171071297958,18.667759708031735,106.75508447970788,0.04792000571612438 +"015|008",284.65097745516294,288.06876296262067,290.61877636244367,1.4597037040922074,5.967798907280724,0.02071657768758182 +"055|008",289.79559423263635,297.07901079141874,303.76052257708005,4.590354992157952,13.964928344443706,0.04700745538111604 +"035|008",297.36386021369464,299.945577404379,301.7212516404191,1.2465362454727444,4.357391426724462,0.014527273462178567 +"015|032",1093.8383850141693,1103.6458922126415,1113.1742623239832,3.736881105224636,19.335877309813895,0.017520001158205206 +"055|032",1114.4406060431838,1152.67625011363,1174.5469544676475,21.36867350377434,60.106348424463704,0.0521450393538849 +"035|032",1140.2541827147097,1156.486970576292,1167.1606361719153,5.989388454650628,26.906453457205544,0.02326567799012705 +"035|056",1731.3598093623825,1820.9953855245617,1846.0607812587384,16.70176754502822,114.7009718963559,0.06298806290676831 +"055|056",1755.321325201929,1801.5789878197895,1843.0853718021874,23.988931668344552,87.76404660025833,0.04871507005444565 +"015|056",1778.7526312700643,1791.2329605571929,1805.5152795800625,6.142962799332176,26.762648309998212,0.014940908803773488 +"015|088",2183.779236043219,2210.644979450431,2235.387300879863,13.168763150879538,51.608064836643734,0.02334525232064787 +"055|088",2215.559925996185,2323.2676523173477,2380.876568795018,30.64475667036738,165.31664279883307,0.07115695113042084 +"035|088",2286.455462193985,2332.21917974419,2360.1765080026403,16.147197827022833,73.72104580865516,0.03160982743343242 +"015|112",2327.0092432903903,2354.704420615899,2389.000996661797,16.86610534633421,61.99175337140696,0.026326766463194703 +"035|112",2419.77486617501,2460.9785516553834,2488.9232076688127,11.650211019312595,69.14834149380249,0.028097904976575147 +"055|112",2440.2996091920636,2480.1654561125088,2522.140367646475,17.926832553908152,81.84075845441157,0.03299810432110905 diff --git a/doc/sphinx/08_sparta/ats3--all.csv b/doc/sphinx/08_sparta/ats3--all.csv index 1f60e2c1..1ee7ddfb 100644 --- a/doc/sphinx/08_sparta/ats3--all.csv +++ b/doc/sphinx/08_sparta/ats3--all.csv @@ -1,1891 +1,962 @@ -FOM,RUN,PPC,RanksPerDomain,AppName,Try,Dir -31.494019647957263,500,55,1,spa_crossroads_omp_spr,0,/lustre/roscratch1/.mdt0/amagela/benchmarking/SPARTA/benchmarks-main/doc/sphinx/08_sparta/run-20231203_060153_438525/try-00 -31.507725770451874,500,55,1,spa_crossroads_omp_spr,1,/lustre/roscratch1/.mdt0/amagela/benchmarking/SPARTA/benchmarks-main/doc/sphinx/08_sparta/run-20231203_060153_438525/try-01 -99.38365484165858,6824,15,4,spa_crossroads_omp_spr,0,/lustre/roscratch1/.mdt0/amagela/benchmarking/SPARTA/benchmarks-main/doc/sphinx/08_sparta/run-20231203_100223_438594/try-00 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+2510.832566055422,112,1,679.04,4346,392916724,55,1.0,/usr/projects/hpctest/amagela/ats-5/SPARTA/lb/doc/sphinx/08_sparta/runs--ultima01/single-20240314_135135_909239/try-05/log.sparta +2513.2922276381482,112,1,691.428,4346,392916724,55,1.0,/usr/projects/hpctest/amagela/ats-5/SPARTA/lb/doc/sphinx/08_sparta/runs--ultima01/single-20240314_135129_909209/try-02/log.sparta +2516.313032641794,112,1,677.305,4346,392916724,55,1.0,/usr/projects/hpctest/amagela/ats-5/SPARTA/lb/doc/sphinx/08_sparta/runs--ultima01/single-20240314_135129_909209/try-07/log.sparta +2522.140367646475,112,1,675.531,4346,392916724,55,1.0,/usr/projects/hpctest/amagela/ats-5/SPARTA/lb/doc/sphinx/08_sparta/runs--ultima01/single-20240314_135129_909209/try-05/log.sparta diff --git a/doc/sphinx/08_sparta/metrics_compute.sh b/doc/sphinx/08_sparta/metrics_compute.sh index 0f91ab4b..4eb18236 100755 --- a/doc/sphinx/08_sparta/metrics_compute.sh +++ b/doc/sphinx/08_sparta/metrics_compute.sh @@ -1,6 +1,13 @@ #!/bin/bash -find . -name "log.sparta" -type f -print0 \ - | xargs -0 -P 8 -I mfl ./sparta_fom.py --file mfl --numRanksPerNode 112 +compute_fom() +{ + num_ranks=` grep Running $1 | awk '{print $3}' ` + ./sparta_fom.py --file $1 --numRanksPerNode $num_ranks +} +export -f compute_fom + +find $1 -name "log.sparta" -type f -print0 \ + | xargs -0 -P 8 -I mfl bash -c "compute_fom mfl" exit 0 diff --git a/doc/sphinx/08_sparta/metrics_rollup.sh b/doc/sphinx/08_sparta/metrics_rollup.sh index 7e27a768..961f8752 100755 --- a/doc/sphinx/08_sparta/metrics_rollup.sh +++ b/doc/sphinx/08_sparta/metrics_rollup.sh @@ -1,6 +1,6 @@ #!/bin/bash -find . -name "log.sparta.csv" -type f -print0 \ +find $1 -name "log.sparta.csv" -type f -print0 \ | xargs -0 -I file cat file \ | sort \ | uniq \ diff --git a/doc/sphinx/08_sparta/run-crossroads-mapcpu-memory.sh b/doc/sphinx/08_sparta/run-crossroads-mapcpu-memory.sh new file mode 100755 index 00000000..9b229724 --- /dev/null +++ b/doc/sphinx/08_sparta/run-crossroads-mapcpu-memory.sh @@ -0,0 +1,189 @@ +#!/bin/bash +#SBATCH --job-name=sparta-L1 +#SBATCH --nodes=1 +#SBATCH --time=4:00:00 +#SBATCH --core-spec=0 # this seemingly needs to be done with sbatch +##SBATCH --exclude=nid006219,nid005850,nid003658,nid001813,nid001451,nid002233,nid005892,nid005896,nid003804,nid002065,nid001855,nid005912,nid006402,nid005723,nid006615,nid005851,nid005356 + +umask 022 +ulimit -c unlimited +set -e +set -x + +# directory and log file setup +export SLURM_JOB_ID=${SLURM_JOB_ID:-424242} +export DIR_BASE="`pwd -P`" +export DIR_ROOT="`git rev-parse --show-toplevel`" +export DIR_SRC="${DIR_ROOT}/sparta" +export DIR_EXE="${DIR_SRC}/src" +export DIR_TAG="${DIR_TAG:-run}" +export DAYSTAMP="`date '+%Y%m%d'`" +export SECSTAMP="`date '+%Y%m%d_%H%M%S'`" +export FULLUNIQ="${SECSTAMP}_${RANDOM}" +export DIR_CASE="${SECSTAMP}_${SLURM_JOB_ID}" +export DIR_RUN="${DIR_TAG}-${DIR_CASE}" +export TMPDIR="/tmp/$SLURM_JOB_ID" # set to avoid potential runtime error +export FILE_LOG="output-srun-${DIR_CASE}.log" +export FILE_METRICS="output-metrics-${DIR_CASE}.csv" +export FILE_ENV="output-environment-${DIR_CASE}.txt" +export FILE_STATE="output-state-${DIR_CASE}.log" +export FILE_TRY="output-script-${DIR_CASE}.log" +export FILE_TIME="output-time-${DIR_CASE}.txt" + +# SPARTA setup +export SPARTA_PPC=${SPARTA_PPC:-24} +export SPARTA_RUN=${SPARTA_RUN:-1000} +export SPARTA_STATS=${SPARTA_STATS:-10} +export SPARTA_IS_KOKKOS_TOOLS="${SPARTA_IS_KOKKOS_TOOLS:-no}" +export APP_REPEAT=${APP_REPEAT:-1} +export APP_NAME=${APP_NAME:-"spa_crossroads_serial_spr"} +export APP_EXE="${DIR_BASE}/${APP_NAME}" + +# MPI & hardware setup +export SLURM_JOB_NUM_NODES=${SLURM_JOB_NUM_NODES:-1} +export NODES=${NODES:-$SLURM_JOB_NUM_NODES} +export RANKS_PER_DOMAIN=${RANKS_PER_DOMAIN:-14} +export SOCKETS_PER_NODE=${SOCKETS_PER_NODE:-2} +export DOMAINS_PER_SOCKET=${DOMAINS_PER_SOCKET:-4} +export RANKS_PER_SOCKET=$(( $RANKS_PER_DOMAIN * $DOMAINS_PER_SOCKET )) +export RANKS_PER_NODE=$(( $RANKS_PER_DOMAIN * $DOMAINS_PER_SOCKET * $SOCKETS_PER_NODE )) +export RANKS_PER_JOB=$(( $RANKS_PER_NODE * $NODES )) +export SPARTA_RANK_BIND="`${DIR_ROOT}/map_cpu/map_cpu ${RANKS_PER_NODE} 2>/dev/null`" + +# Thread setup +export SWTHREADS_PER_RANK=${SWTHREADS_PER_RANK:-1} +export HWTHREADS_PER_CORE=${HWTHREADS_PER_CORE:-2} +export PLACEHOLDERS_PER_RANK=$(( $SWTHREADS_PER_RANK * $HWTHREADS_PER_CORE )) +export PLACEHOLDERS_PER_RANK=1 +export PES_PER_NODE=$(( $RANKS_PER_NODE * $SWTHREADS_PER_RANK )) + +# OpenMP setup +export OMP_NUM_THREADS=${SWTHREADS_PER_RANK} +# export GOMP_CPU_AFFINITY=${SPARTA_RANK_BIND} # "112-223" +export OMP_PROC_BIND=spread #TRUE #spread +export OMP_PLACES=threads #'{1,2}' #threads +# export SRUN_CPUS_PER_TASK=${SRUN_CPUS_PER_TASK:-28} +# export OMP_DISPLAY_ENV=VERBOSE +export OMP_STACKSIZE=2G +export MPICH_MAX_THREAD_SAFETY=multiple +export FI_CXI_RX_MATCH_MODE=software + +# Kokkos Tools +if test "${SPARTA_IS_KOKKOS_TOOLS}" = "yes" ; then + export KOKKOS_TOOLS_LIBS="${DIR_ROOT}/kokkos-tools/profiling/space-time-stack/kp_space_time_stack.so" +else + unset KOKKOS_TOOLS_LIBS +fi + +# LDPXI setup if applicable +export LDPXI_INST="gru,io,mpi,rank,mem" +export LDPXI_PERF_EVENTS="cpu-cycles,ref-cycles,dTLB-load-misses,dTLB-loads" +export LDPXI_OUTPUT="sparta-ldpxi.$SLURM_JOB_ID.csv" + +# Create and populate run folder and edit input file +prep_toplevel_run() +{ + mkdir -p "${DIR_BASE}/${DIR_RUN}" + cd "${DIR_BASE}/${DIR_RUN}" + # cp -a "${DIR_SRC}/examples/cylinder/in.cylinder" ./ + awk "\$1 ~ /^run\$/ {\$2 = ${SPARTA_RUN}}1" "${DIR_SRC}/examples/cylinder/in.cylinder" \ + | awk "\$2 ~ /^ppc\$/ {\$4 = ${SPARTA_PPC}}1" \ + | awk "\$1 ~ /^stats\$/ {\$2 = ${SPARTA_STATS}}1" \ + > "./in.cylinder" + cp -a "${DIR_SRC}/examples/cylinder/circle_R0.5_P10000.surf" ./ + cp -a "${DIR_SRC}"/examples/cylinder/air.* ./ + ln -s ../sparta_fom.py ./ +} +export -f prep_toplevel_run +prep_toplevel_run + +print_system_env_info() +{ + echo "################" + echo "INFO: System and environment information" + echo " INFO: Date and Time" + date + echo " INFO: modules" + module list + echo " INFO: CPU info" + # cat /proc/cpuinfo | tail -27 + lscpu + echo " INFO: memory info" + cat /proc/meminfo + echo " INFO: SLURM info" + env | grep -i slurm + echo " INFO: HOST info" + hostname + echo " INFO: NUMA info" + numactl --hardware +} +export -f print_system_env_info +print_system_env_info >"${FILE_ENV}" 2>&1 + +# address node starting state +fix_state() +{ + set -x + srun --drop-caches=pagecache -N $SLURM_NNODES -n $SLURM_NNODES --ntasks-per-node=1 true + srun --drop-caches=slab -N $SLURM_NNODES -n $SLURM_NNODES --ntasks-per-node=1 true + srun --vm-compact-atom=enable -N $SLURM_NNODES -n $SLURM_NNODES --ntasks-per-node=1 true + set +x +} +export -f fix_state +fix_state >"${FILE_STATE}" 2>&1 + +# do work +run_try() +{ + set -x + i=$1 + echo "INFO: Perform Simulation #${i}" + date + dir_try="try-` printf '%02d' $i `" + mkdir -p "${dir_try}" + pushd "${dir_try}" + ln -s ../air.* ../*.surf ../in.cylinder ./ + ln -s ../sparta_fom.py ./ + + # single-thread case is nice + export SPARTA_CPU_BIND="" + if test ${SWTHREADS_PER_RANK} -eq 1 ; then + export SPARTA_CPU_BIND=",map_cpu:${SPARTA_RANK_BIND}" + fi + + # export LD_PRELOAD=libldpxi_mpi.so + # export LD_PRELOAD=/usr/projects/hpctest/amagela/ldpxi/ldpxi/install/ats3/ldpxi-1.0.1/intel+cray-mpich-8.1.25/lib/libldpxi_mpi.so.1.0.1 + export LD_PRELOAD=/usr/projects/hpctest/amagela/ats-5/LDPXI/xr/libldpxi.so + # /usr/bin/time --verbose --output="${FILE_TIME}" \ + # time \ + srun \ + --unbuffered \ + --ntasks=$RANKS_PER_JOB \ + --ntasks-per-node=$RANKS_PER_NODE \ + --cpu-bind=verbose${SPARTA_CPU_BIND} \ + --distribution=block:block \ + --output="${FILE_LOG//.log/-${i}.log}" \ + "${APP_EXE}" \ + -k on t ${OMP_NUM_THREADS} -sf kk \ + -in "in.cylinder" + unset LD_PRELOAD +# --ntasks-per-socket=$RANKS_PER_SOCKET \ +# --hint=nomultithread \ +# --cpu-bind=verbose,ldoms \ +# --cpus-per-task=$SRUN_CPUS_PER_TASK \ +# --cpus-per-task=${PLACEHOLDERS_PER_RANK} \ +# --distribution=block:cyclic \ +# --cpu-bind="map_cpu:`${DIR_ROOT}/map_cpu/map_cpu ${PES_PER_NODE} 2>/dev/null`" \ + popd + date +} +export -f run_try + +for (( i=0; i<${APP_REPEAT}; i++ )) ; do + echo "INFO: Perform Simulation #${i} at ` date `" + run_try $i >"${FILE_TRY//.log/-${i}.log}" 2>&1 +done + +# mv ../slurm-${SLURM_JOBID}.out . + +exit 0 diff --git a/doc/sphinx/08_sparta/sbatch-crossroads-mapcpu-check.sh b/doc/sphinx/08_sparta/sbatch-crossroads-mapcpu-check.sh new file mode 100755 index 00000000..0e1ad2ad --- /dev/null +++ b/doc/sphinx/08_sparta/sbatch-crossroads-mapcpu-check.sh @@ -0,0 +1,23 @@ +#!/bin/bash +# This submits a full sweep + +export NUM_DUPLICATES=1 +export APP_REPEAT=1 +export SBATCH_OPTS="--core-spec=0 --partition=hbm" + +for (( i=0 ; i<${NUM_DUPLICATES} ; i++ )) ; do + + export SPARTA_IS_KOKKOS_TOOLS="no" + export DIR_TAG="single" + export APP_NAME="spa_crossroads_serial_spr" + + export SPARTA_PPC=35 + export RANKS_PER_DOMAIN=14 + export SPARTA_RUN=6866 + export SPARTA_STATS=100 + sleep 0.2 + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + +done + +exit 0 diff --git a/doc/sphinx/08_sparta/sbatch-crossroads-mapcpu-memory.sh b/doc/sphinx/08_sparta/sbatch-crossroads-mapcpu-memory.sh index 9025b004..8681e54e 100755 --- a/doc/sphinx/08_sparta/sbatch-crossroads-mapcpu-memory.sh +++ b/doc/sphinx/08_sparta/sbatch-crossroads-mapcpu-memory.sh @@ -3,107 +3,107 @@ export NUM_DUPLICATES=1 export APP_REPEAT=1 -# export SBATCH_OPTS="--core-spec=0 --exclude=nid006219,nid005850,nid003658,nid001813,nid001451,nid002233,nid005892,nid005896,nid003804,nid002065,nid001855,nid005912,nid006402,nid005723,nid006615,nid005851,nid005356" export SBATCH_OPTS="--core-spec=0 --partition=hbm" for (( i=0 ; i<${NUM_DUPLICATES} ; i++ )) ; do export SPARTA_IS_KOKKOS_TOOLS="no" + export DIR_TAG="memory" - export APP_NAME="spa_crossroads_omp_spr" + export APP_NAME="spa_crossroads_serial_spr" export SPARTA_PPC=55 export RANKS_PER_DOMAIN=14 export SPARTA_RUN=4346 export SPARTA_STATS=100 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=11 export SPARTA_RUN=3924 export SPARTA_STATS=90 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=7 export SPARTA_RUN=3095 export SPARTA_STATS=70 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=4 export SPARTA_RUN=1981 export SPARTA_STATS=40 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=1 export SPARTA_RUN=500 export SPARTA_STATS=10 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export SPARTA_PPC=35 export RANKS_PER_DOMAIN=14 export SPARTA_RUN=6866 export SPARTA_STATS=100 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=11 export SPARTA_RUN=6406 export SPARTA_STATS=100 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=7 export SPARTA_RUN=4818 export SPARTA_STATS=100 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=4 export SPARTA_RUN=2882 export SPARTA_STATS=60 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=1 export SPARTA_RUN=790 export SPARTA_STATS=10 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export SPARTA_PPC=15 export RANKS_PER_DOMAIN=14 export SPARTA_RUN=15193 export SPARTA_STATS=300 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=11 export SPARTA_RUN=14405 export SPARTA_STATS=300 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=7 export SPARTA_RUN=11067 export SPARTA_STATS=200 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=4 export SPARTA_RUN=6824 export SPARTA_STATS=100 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh export RANKS_PER_DOMAIN=1 export SPARTA_RUN=1779 export SPARTA_STATS=40 sleep 0.2 - sbatch ${SBATCH_OPTS} run-crossroads-mapcpu.sh + sbatch ${SBATCH_OPTS} run-crossroads-mapcpu-memory.sh done diff --git a/doc/sphinx/08_sparta/sparta_stats.py b/doc/sphinx/08_sparta/sparta_stats.py index 7c50fb1f..1aeb1358 100755 --- a/doc/sphinx/08_sparta/sparta_stats.py +++ b/doc/sphinx/08_sparta/sparta_stats.py @@ -197,7 +197,7 @@ def _get_data(self): key = ( str(row[col_ppc]).zfill(3) + "|" - + str(row[col_ranks]).zfill(2) + + str(row[col_ranks]).zfill(3) ) self.logger.debug("key = {}".format(key)) if key not in self.cache_fom: From b4e53a2d113a656ba1a06767d90433c62f5d6ad1 Mon Sep 17 00:00:00 2001 From: Anthony Agelastos Date: Thu, 14 Mar 2024 23:53:24 -0600 Subject: [PATCH 05/12] added final vortex info for SPARTA --- doc/sphinx/08_sparta/ats2.csv | 6 ++ doc/sphinx/08_sparta/ats2.gp | 26 +++++++++ doc/sphinx/08_sparta/bsub-vortex.sh | 51 +++++++++++++++++ doc/sphinx/08_sparta/sparta.rst | 89 +++++++++++++++++++++++++---- 4 files changed, 162 insertions(+), 10 deletions(-) create mode 100644 doc/sphinx/08_sparta/ats2.csv create mode 100644 doc/sphinx/08_sparta/ats2.gp create mode 100755 doc/sphinx/08_sparta/bsub-vortex.sh diff --git a/doc/sphinx/08_sparta/ats2.csv b/doc/sphinx/08_sparta/ats2.csv new file mode 100644 index 00000000..eca6755f --- /dev/null +++ b/doc/sphinx/08_sparta/ats2.csv @@ -0,0 +1,6 @@ +Memory (%),Memory (GiB),ppc,No. Particles,Actual +28.9%,4.62,1,7122260,467.3134309 +42.5%,6.81,2,14229882,588.2731042 +59.7%,9.55,3,21386645,655.5729716 +75.0%,12.01,4,28535680,711.8746021 +86.5%,13.85,5,35684234,743.8405238 diff --git a/doc/sphinx/08_sparta/ats2.gp b/doc/sphinx/08_sparta/ats2.gp new file mode 100644 index 00000000..36d309a0 --- /dev/null +++ b/doc/sphinx/08_sparta/ats2.gp @@ -0,0 +1,26 @@ +#!/usr/bin/gnuplot +set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' +set output "ats2.png" + +set title "SPARTA Strong Scaling Throughput on Single V100" font "serif,22" +set xlabel "Percentage of Accelerator Memory Used" +set ylabel "Figure of Merit (Mega particle steps per sec. per node)" + +set xrange [0:100] +set key left top + +# set logscale x 2 +# set logscale y 2 + +set format x "%.0f%%" + +set grid +show grid + +set datafile separator comma +set key autotitle columnheader + +set style line 1 linetype 6 dashtype 1 linecolor rgb "#FF0000" linewidth 2 pointtype 6 pointsize 3 +set style line 2 linetype 1 dashtype 2 linecolor rgb "#FF0000" linewidth 2 + +plot "ats2.csv" using 1:5 with linespoints linestyle 1 diff --git a/doc/sphinx/08_sparta/bsub-vortex.sh b/doc/sphinx/08_sparta/bsub-vortex.sh new file mode 100755 index 00000000..33c06c36 --- /dev/null +++ b/doc/sphinx/08_sparta/bsub-vortex.sh @@ -0,0 +1,51 @@ +#!/bin/bash +# This submits a full sweep + +export NUM_DUPLICATES=8 +export APP_REPEAT=8 +export BSUB_OPTIONS="-W 04:00 -core_isolation 2 -J sparta" + +for (( i=0 ; i<${NUM_DUPLICATES} ; i++ )) ; do + + export SPARTA_IS_KOKKOS_TOOLS="no" + export DIR_TAG="single" + export APP_NAME="spa_vortex_kokkos" + + export SPARTA_PPC=5 + export SPARTA_RUN=13937 + export SPARTA_STATS=300 + export SLURM_JOB_ID=${SPARTA_PPC}${RANDOM} + sleep 0.2 + bsub ${BSUB_OPTIONS} run-vortex.sh + + export SPARTA_PPC=4 + export SPARTA_RUN=17299 + export SPARTA_STATS=400 + export SLURM_JOB_ID=${SPARTA_PPC}${RANDOM} + sleep 0.2 + bsub ${BSUB_OPTIONS} run-vortex.sh + + export SPARTA_PPC=3 + export SPARTA_RUN=20536 + export SPARTA_STATS=400 + export SLURM_JOB_ID=${SPARTA_PPC}${RANDOM} + sleep 0.2 + bsub ${BSUB_OPTIONS} run-vortex.sh + + export SPARTA_PPC=2 + export SPARTA_RUN=28583 + export SPARTA_STATS=600 + export SLURM_JOB_ID=${SPARTA_PPC}${RANDOM} + sleep 0.2 + bsub ${BSUB_OPTIONS} run-vortex.sh + + export SPARTA_PPC=1 + export SPARTA_RUN=43543 + export SPARTA_STATS=1000 + export SLURM_JOB_ID=${SPARTA_PPC}${RANDOM} + sleep 0.2 + bsub ${BSUB_OPTIONS} run-vortex.sh + +done + +exit 0 diff --git a/doc/sphinx/08_sparta/sparta.rst b/doc/sphinx/08_sparta/sparta.rst index 67b3dcbd..648b2c19 100644 --- a/doc/sphinx/08_sparta/sparta.rst +++ b/doc/sphinx/08_sparta/sparta.rst @@ -207,6 +207,11 @@ times between 300 and 600 seconds and then divided by the number of nodes, i.e., aid in computing this quantity. Pass it the ``-h`` command line argument to view its help page for additional information. +It is desired to capture the FOM for varying problem sizes that +encompass utilizing 35% to 75% of available memory (when all PEs are +utilized). The ultimate goal is to maximize this throughput FOM while +utilizing at least 50% of available memory. + .. _SPARTACorrectness: @@ -359,6 +364,8 @@ The platforms utilized for benchmarking activities are listed and described belo * Advanced Technology System 3 (ATS-3), also known as Crossroads (see :ref:`GlobalSystemATS3`) +* Advanced Technology System 2 (ATS-2), also known as Sierra (see + :ref:`GlobalSystemATS2`) Building @@ -372,6 +379,8 @@ the following systems: * Generic (see :ref:`BuildGeneric`) * Advanced Technology System 3 (ATS-3), also known as Crossroads (see :ref:`BuildATS3`) +* Advanced Technology System 2 (ATS-2), also known as Sierra (see + :ref:`BuildATS2`) .. _BuildGeneric: @@ -399,6 +408,23 @@ tools release. The script discussed below is :download:`build-crossroads.sh ./build-crossroads.sh +.. _BuildATS2: + +Sierra +------ + +Instructions for building on Sierra are provided below. These +instructions assume this repository has been cloned and that the +current working directory is at the top level of this repository. The +script discussed below is :download:`build-vortex.sh +`. + +.. code-block:: bash + + cd doc/sphinx/08_sparta + ./build-vortex.sh + + Running ======= @@ -406,6 +432,8 @@ Instructions are provided on how to run SPARTA for the following systems: * Advanced Technology System 3 (ATS-3), also known as Crossroads (see :ref:`RunATS3`) +* Advanced Technology System 2 (ATS-2), also known as Sierra (see + :ref:`RunATS2`) .. _RunATS3: @@ -428,14 +456,32 @@ ensembles. scaling trends. :download:`scale-crossroads-mapcpu.sh ` - This script successively executes SPARTA on varying numbers of nodes for the - same set of input parameters; there are many environment variables that can - be set to control what it runs. + This script successively executes SPARTA on a specified number of + nodes for the same set of input parameters; there are many + environment variables that can be set to control what it runs. -:download:`sbatch-crossroads-mapcpu.sh ` - This script runs the previous script for different numbers of MPI ranks per - node, problem size, problem duration, and other parameters to yield several - strong scaling trends. +:download:`sbatch-crossroads-mapcpu-scale.sh ` + This script runs the previous script for different numbers of nodes. + + +.. _RunATS2: + +Sierra +------ + +Instructions for performing the simulations on Sierra are provided below. +There are two scripts that facilitate running several single-node strong-scaling +ensembles. + +:download:`run-vortex.sh ` + This script successively executes SPARTA on a single node for the same set of + input parameters; there are many environment variables that can be set to + control what it runs. + +:download:`bsub-vortex.sh ` + This script runs the previous script for differing problem size, + problem duration, and other parameters to yield several strong + scaling trends. .. _SPARTAResults: @@ -447,9 +493,8 @@ Results from SPARTA are provided on the following systems: * Advanced Technology System 3 (ATS-3), also known as Crossroads (see :ref:`ResultsATS3`) - - - As best practices for utilizing Crossroads are developed, its data may be - updated. +* Advanced Technology System 2 (ATS-2), also known as Sierra (see + :ref:`ResultsATS2`) .. _ResultsATS3: @@ -532,6 +577,30 @@ particle steps per second per node. SPARTA Single Node Strong Scaling Memory on Crossroads with ppc=55 +.. _ResultsATS2: + +Sierra +------ + +Strong single-node scaling throughput for varying problem sizes (i.e., +changing ``ppc`` and running on a single Nvidia V100) of SPARTA on +Sierra are provided below. The throughput corresponds to Mega particle +steps per second per node. + +.. csv-table:: SPARTA Single Node Strong Scaling Throughput and Memory on Sierra Utilizing a Single Nvidia V100 + :file: ats2.csv + :align: center + :widths: 10, 10, 10, 10, 10 + :header-rows: 1 + +.. figure:: ats2.png + :align: center + :scale: 50% + :alt: SPARTA Single Node Strong Scaling Throughput on Sierra Utilizing a Single Nvidia V100 + + SPARTA Single Node Strong Scaling Throughput on Sierra Utilizing a Single Nvidia V100 + + References ========== From b812f6bfa832b58212547366ca67fa16eb6812bc Mon Sep 17 00:00:00 2001 From: Anthony Agelastos Date: Thu, 14 Mar 2024 23:54:06 -0600 Subject: [PATCH 06/12] added raw ats-2 data for SPARTA --- doc/sphinx/08_sparta/ats2--all--stats.csv | 6 + doc/sphinx/08_sparta/ats2--all.csv | 326 ++++++++++++++++++++++ 2 files changed, 332 insertions(+) create mode 100644 doc/sphinx/08_sparta/ats2--all--stats.csv create mode 100644 doc/sphinx/08_sparta/ats2--all.csv diff --git a/doc/sphinx/08_sparta/ats2--all--stats.csv b/doc/sphinx/08_sparta/ats2--all--stats.csv new file mode 100644 index 00000000..5e29c688 --- /dev/null +++ b/doc/sphinx/08_sparta/ats2--all--stats.csv @@ -0,0 +1,6 @@ +"Key","Min","Mean","Max","Stdev","Range","Variability" +"001|001",386.002061693491,436.381306732859,467.3134308847335,13.633534330886373,81.31136919124253,0.18633100899764066 +"002|001",536.2419639254344,565.4479440331818,588.2731042251077,10.66908836539641,52.03114029967321,0.09201756032314781 +"003|001",598.5194459450801,630.7840616602509,655.5729716286478,14.606408008675613,57.05352568356773,0.0904485847873207 +"004|001",647.8944166608529,682.0859836354082,711.8746021306033,11.633862304499585,63.98018546975038,0.09380076266740789 +"005|001",673.7647040621305,714.5148360973735,743.8405237875515,13.548669597128464,70.07581972542107,0.09807468814527344 diff --git a/doc/sphinx/08_sparta/ats2--all.csv b/doc/sphinx/08_sparta/ats2--all.csv new file mode 100644 index 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zU4E6+v-F9Km1c0PE%G!LA}(1VMKd5x-x>y8{?-xbDsyi>-EFc)N2_x(!F5^Rh0km5 zSb|TZ03UrD%C|YeOxn7;aq#T%GWrh5wYc`FBj#1M{9%s_f4Lfzgc#FS0eecICE~*n4`^v&uZti0^f3?|?~`MLlTQ`>t82_EmNZ!+bd@pkodJym%qUuqy(MBTm&hXu{R|g2wAZAkoMZ;=u51Yp;8`sdWNz>iYz5 zW;pc7;(EqoeJZ-0#(-hQhAZgHrIXE4Q|z&0NQ)&q@4F2fzvxTos3(L!P`z58< zsxz;i;*FBkq!bR>Cf+tz`)uiU_cou5Ab784NTi~7pu@)RK4o}+KAiSQF{-4imBQY1 z*NUi)MMxy&a^)xH;#R(>?Vp*Vi|P3xFRR4#qID2edpaN{vhPRnA}3f-WIyxYGsm*X za_L)He7%(U!^kJ~cja?4L^wkEO&U3CJ^wO1bNsRUZv}j2w!8HU0Sa1KW5B>;!-rBmKVs@V74vW$WeOvE;Nq4^eZ zk3hI_(=We2MlpO(l_P#cV)X1}e$MD=a)3KG4NQAsq6I7)>TJeL-3E_^zUJ?ET15al zz^;0NR!UyAg=aSp`jpw3$WXP#f*EdsKX(VB#K?x>m%UZ7jU870U?g@Mq9os9)+>Fs zZh52L`~ZYWan0fUr>762;})d)SJMy#0Qg}503?r<(SJub%z>Mg`v13){_DRYfK_wT zQUAAW1^~$a>wUDciDBc!lrT&l4iF|CjGsrE2*v^cm^pra@8am>$^&+Cg86ZgQ2&Ru lkEeM0KO0!G!>V~0ss58`kJTH|{{%e1j(Hd{XSx1a{6EtdD7ydv From e54b10cf923abb909da322d380b64104fd98d638 Mon Sep 17 00:00:00 2001 From: Anthony Agelastos Date: Fri, 15 Mar 2024 00:04:32 -0600 Subject: [PATCH 08/12] added placeholder notes for GPU data with MiniEM --- doc/sphinx/07_miniem/miniem.rst | 12 ++++++++++++ 1 file changed, 12 insertions(+) diff --git a/doc/sphinx/07_miniem/miniem.rst b/doc/sphinx/07_miniem/miniem.rst index 0f37d3be..6c40b47d 100644 --- a/doc/sphinx/07_miniem/miniem.rst +++ b/doc/sphinx/07_miniem/miniem.rst @@ -141,6 +141,9 @@ The platforms utilized for benchmarking activities are listed and described belo * Crossroads (see :ref:`GlobalSystemATS3`) +.. note:: + An appropriate system with GPUs will be added shortly. + Building ======== @@ -161,6 +164,9 @@ following systems: * Advanced Technology System 3 (ATS-3), also known as Crossroads (see :ref:`MiniEMBuildATS3`) +.. note:: + An appropriate system with GPUs will be added shortly. + If submodules were cloned within this repository, then the source code to build MiniEM is already present at the top level within the "trilinos" and "miniem_build" folders. @@ -200,6 +206,9 @@ Instructions are provided on how to run MiniEM for the following systems: * Advanced Technology System 3 (ATS-3), also known as Crossroads (see :ref:`MiniEMRunATS3`) +.. note:: + An appropriate system with GPUs will be added shortly. + .. _MiniEMRunATS3: @@ -219,6 +228,9 @@ Results from MiniEM are provided on the following systems: * Advanced Technology System 3 (ATS-3), also known as Crossroads (see :ref:`MiniEMResultsATS3`) +.. note:: + An appropriate system with GPUs will be added shortly. + .. _MiniEMResultsATS3: From a34225a5d5ce754c73a4e3eec67f34523c8a655e Mon Sep 17 00:00:00 2001 From: Jered Dominguez-Trujillo Date: Fri, 15 Mar 2024 09:43:07 -0600 Subject: [PATCH 09/12] LANL Spatter repo implements atomic writes for CUDA --- .gitmodules | 1 - microbenchmarks/spatter | 2 +- 2 files changed, 1 insertion(+), 2 deletions(-) diff --git a/.gitmodules b/.gitmodules index 5f93b829..e6b01ba9 100644 --- a/.gitmodules +++ b/.gitmodules @@ -20,7 +20,6 @@ [submodule "microbenchmarks/spatter"] path = microbenchmarks/spatter url = git@github.com:lanl/spatter.git - branch = atomics [submodule "miniem_build/spack"] path = miniem_build/spack url = git@github.com:spack/spack diff --git a/microbenchmarks/spatter b/microbenchmarks/spatter index 50699c45..a9c8595b 160000 --- a/microbenchmarks/spatter +++ b/microbenchmarks/spatter @@ -1 +1 @@ -Subproject commit 50699c450ba0ae98e19cb2219cd243b65ca344ee +Subproject commit a9c8595be303d116ccd1160ad0d6be57aeb10655 From 47e78c1ae78e9baef8a40d498085d1d5070aaa6d Mon Sep 17 00:00:00 2001 From: Jered Dominguez-Trujillo Date: Fri, 15 Mar 2024 09:47:16 -0600 Subject: [PATCH 10/12] Spatter atomics documentation update --- doc/sphinx/09_Microbenchmarks/M2_SPATTER/SPATTER.rst | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/doc/sphinx/09_Microbenchmarks/M2_SPATTER/SPATTER.rst b/doc/sphinx/09_Microbenchmarks/M2_SPATTER/SPATTER.rst index ab2d73e3..11725978 100644 --- a/doc/sphinx/09_Microbenchmarks/M2_SPATTER/SPATTER.rst +++ b/doc/sphinx/09_Microbenchmarks/M2_SPATTER/SPATTER.rst @@ -280,7 +280,7 @@ xRAGE Asteroid Spatter Pattern 9 Throughput experiment for the pattern in patterns/xrage/asteroid/spatter9.json. Results will be found in spatter.strongscaling/H100/xrage/asteroid/spatter9/ and Figures will be found in figures/spatter.strongscaling/H100/xrage/asteroid/spatter9/ -Note that we need to enable atomics since this is a scatter pattern which overwrites the same location multiple times. +Note that we need to enable atomics with the `-m` flag since this is a scatter pattern which overwrites the same location multiple times. Results with and without atomics are included, but the results with atomics enabled is the benchmarked performance number of importance. .. code-block:: bash From 8833512a22d421b9322227585727891bbad56306 Mon Sep 17 00:00:00 2001 From: "Galen M. Shipman" Date: Sat, 16 Mar 2024 20:54:13 -0600 Subject: [PATCH 11/12] add script for sweeping throught multiple problem sizes in parthenon strong scaling --- .../parthenon/do_strong_scaling_cpu_sweep.sh | 54 +++++++++++++++++++ 1 file changed, 54 insertions(+) create mode 100755 utils/parthenon/do_strong_scaling_cpu_sweep.sh diff --git a/utils/parthenon/do_strong_scaling_cpu_sweep.sh b/utils/parthenon/do_strong_scaling_cpu_sweep.sh new file mode 100755 index 00000000..b6596bd8 --- /dev/null +++ b/utils/parthenon/do_strong_scaling_cpu_sweep.sh @@ -0,0 +1,54 @@ +#!/bin/bash + +set +x +set +e + +FOOTPRINT=$1 + +#BEGIN Do not change the following for official benchmarking +NXB=16 +NLIM=250 +NLVL=3 +#END + +NXs=(64 128 160) + +EXEC=./burgers-benchmark # executable +INP=../../../benchmarks/burgers/burgers.pin + +# loop +for NX in ${NXs[@]}; do +i=0 +IDEAL1=0 +TIMING_FILE_NAME="cpu_${NX}.csv" +HEADER="No. Cores, Actual, Ideal" +echo "Saving timing to ${TIMING_FILE_NAME}" +echo "${HEADER}" +echo "${HEADER}" > ${TIMING_FILE_NAME} + +for count in 8 32 56 88 112; do + echo "Core count = ${count}" + L=`echo "((${NX}^3)/(${NXB}^3)) >= ${count}" | bc -l` + if (($L == 0)); then + continue; + fi + outfile=$(printf "strong-scale-%d-%d.out" ${NX} ${count}) + errfile=$(printf "strong-scale-%d-%d.err" ${NX} ${count}) + echo "saving to output file ${outfile}" + ARGS="${EXEC} -i ${INP} parthenon/mesh/nx1=${NX} parthenon/mesh/nx2=${NX} parthenon/mesh/nx3=${NX} parthenon/meshblock/nx1=${NXB} parthenon/meshblock/nx2=${NXB} parthenon/meshblock/nx3=${NXB} parthenon/time/nlim=${NLIM} parthenon/mesh/numlevel=${NLVL}" + CMD="srun -n ${count} --hint=nomultithread -o ${outfile} -e ${errfile} ${ARGS}" + echo ${CMD} + ${CMD} + wait + zc=$(grep 'zone-cycles/wallsecond = ' ${outfile} | cut -d '=' -f 2 | xargs) + echo ${zc} + if (( ${i} == 0 )); then + IDEAL1=$(echo "print(\"%.7e\" % (${zc}/${count}))" | python3) + fi + IDEAL=$(echo "print(\"%.7e\" % (${count}*${IDEAL1}))" | python3) + OUTSTR="${count}, ${zc}, ${IDEAL}" + echo "${OUTSTR}" + echo "${OUTSTR}" >> ${TIMING_FILE_NAME} + i=$((${i} + 1)) +done +done From 25d782dcf21f93a082363673c91ce934fbd44e91 Mon Sep 17 00:00:00 2001 From: Galen Shipman Date: Sat, 16 Mar 2024 20:54:44 -0600 Subject: [PATCH 12/12] add gpu throughput script --- doc/sphinx/03_vibe/do_gpu_throughput.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/doc/sphinx/03_vibe/do_gpu_throughput.sh b/doc/sphinx/03_vibe/do_gpu_throughput.sh index 14046730..726418a7 100755 --- a/doc/sphinx/03_vibe/do_gpu_throughput.sh +++ b/doc/sphinx/03_vibe/do_gpu_throughput.sh @@ -24,7 +24,7 @@ for NX in 32 64 96 128 160 192; do echo "Mesh base size = ${NX}" outfile=$(printf "gpu-throughput-%d.out" ${NX}) echo "saving to output file ${outfile}" - ARGS="${EXEC} -i ${INP} parthenon/mesh/nx1=${NX} parthenon/mesh/nx2=${NX} parthenon/mesh/nx3=${NX} parthenon/meshblock/nx1=${NXB} parthenon/meshblock/nx2=${NXB} parthenon/meshblock/nx3=${NXB} parthenon/time/nlim=${NLIM} parthenon/mesh/numlevel=${NLVL}" + ARGS="mpirun -n 1 ${EXEC} -i ${INP} parthenon/mesh/nx1=${NX} parthenon/mesh/nx2=${NX} parthenon/mesh/nx3=${NX} parthenon/meshblock/nx1=${NXB} parthenon/meshblock/nx2=${NXB} parthenon/meshblock/nx3=${NXB} parthenon/time/nlim=${NLIM} parthenon/mesh/numlevel=${NLVL}" CMD="${ARGS} | tee ${outfile}" echo ${CMD} ${ARGS} | tee ${outfile}