From dc228eebe61f1b69a45febfff56882047afdf4ca Mon Sep 17 00:00:00 2001 From: Anthony Agelastos Date: Tue, 5 Mar 2024 09:56:03 -0700 Subject: [PATCH] massive update to MiniEM documentation --- doc/sphinx/07_miniem/ats2.csv | 5 - doc/sphinx/07_miniem/ats2.gp | 26 - doc/sphinx/07_miniem/ats2mem.gp | 26 - doc/sphinx/07_miniem/ats3--all--stats.csv | 16 - doc/sphinx/07_miniem/ats3--all.csv | 963 ------------------ doc/sphinx/07_miniem/ats3--memory.csv | 16 - .../{cts1mem-0.25.gp => ats3-0768k-mem.gp} | 12 +- doc/sphinx/07_miniem/ats3-0768k.csv | 6 + doc/sphinx/07_miniem/ats3-0768k.gp | 26 + .../{cts1mem-1.00.gp => ats3-2592k-mem.gp} | 12 +- doc/sphinx/07_miniem/ats3-2592k.csv | 6 + doc/sphinx/07_miniem/ats3-2592k.gp | 26 + .../{cts1mem-2.00.gp => ats3-4116k-mem.gp} | 12 +- doc/sphinx/07_miniem/ats3-4116k.csv | 6 + doc/sphinx/07_miniem/ats3-4116k.gp | 26 + doc/sphinx/07_miniem/cts1-0.25.csv | 8 - doc/sphinx/07_miniem/cts1-0.25.gp | 24 - doc/sphinx/07_miniem/cts1-0.50.csv | 8 - doc/sphinx/07_miniem/cts1-0.50.gp | 24 - doc/sphinx/07_miniem/cts1-1.00.csv | 8 - doc/sphinx/07_miniem/cts1-1.00.gp | 24 - doc/sphinx/07_miniem/cts1-2.00.csv | 8 - doc/sphinx/07_miniem/cts1-2.00.gp | 24 - doc/sphinx/07_miniem/cts1.csv | 8 - doc/sphinx/07_miniem/cts1.gp | 24 - doc/sphinx/07_miniem/cts1mem-0.50.gp | 24 - doc/sphinx/07_miniem/cts1mem.gp | 24 - doc/sphinx/07_miniem/metrics_compute.sh | 2 +- doc/sphinx/07_miniem/metrics_rollup.sh | 2 +- doc/sphinx/07_miniem/miniem.rst | 412 ++------ doc/sphinx/07_miniem/miniem_fom2.py | 23 + 31 files changed, 250 insertions(+), 1581 deletions(-) delete mode 100644 doc/sphinx/07_miniem/ats2.csv delete mode 100644 doc/sphinx/07_miniem/ats2.gp delete mode 100644 doc/sphinx/07_miniem/ats2mem.gp delete mode 100644 doc/sphinx/07_miniem/ats3--all--stats.csv delete mode 100644 doc/sphinx/07_miniem/ats3--all.csv delete mode 100644 doc/sphinx/07_miniem/ats3--memory.csv rename doc/sphinx/07_miniem/{cts1mem-0.25.gp => ats3-0768k-mem.gp} (52%) create mode 100644 doc/sphinx/07_miniem/ats3-0768k.csv create mode 100644 doc/sphinx/07_miniem/ats3-0768k.gp rename doc/sphinx/07_miniem/{cts1mem-1.00.gp => ats3-2592k-mem.gp} (52%) create mode 100644 doc/sphinx/07_miniem/ats3-2592k.csv create mode 100644 doc/sphinx/07_miniem/ats3-2592k.gp rename doc/sphinx/07_miniem/{cts1mem-2.00.gp => ats3-4116k-mem.gp} (52%) create mode 100644 doc/sphinx/07_miniem/ats3-4116k.csv create mode 100644 doc/sphinx/07_miniem/ats3-4116k.gp delete mode 100644 doc/sphinx/07_miniem/cts1-0.25.csv delete mode 100644 doc/sphinx/07_miniem/cts1-0.25.gp delete mode 100644 doc/sphinx/07_miniem/cts1-0.50.csv delete mode 100644 doc/sphinx/07_miniem/cts1-0.50.gp delete mode 100644 doc/sphinx/07_miniem/cts1-1.00.csv delete mode 100644 doc/sphinx/07_miniem/cts1-1.00.gp delete mode 100644 doc/sphinx/07_miniem/cts1-2.00.csv delete mode 100644 doc/sphinx/07_miniem/cts1-2.00.gp delete mode 100644 doc/sphinx/07_miniem/cts1.csv delete mode 100644 doc/sphinx/07_miniem/cts1.gp delete mode 100644 doc/sphinx/07_miniem/cts1mem-0.50.gp delete mode 100644 doc/sphinx/07_miniem/cts1mem.gp diff --git a/doc/sphinx/07_miniem/ats2.csv b/doc/sphinx/07_miniem/ats2.csv deleted file mode 100644 index 48e71eb0..00000000 --- a/doc/sphinx/07_miniem/ats2.csv +++ /dev/null @@ -1,5 +0,0 @@ -X Elements,Y Elements,Z Elements,No. Cells,Actual,Memory (GiB) -27,27,27,19683,20.85107735,4.9 -34,34,34,39304,26.86800991,8.6 -38,38,38,54872,26.83676332,11.7 -42,42,42,74088,28.57570093,15.0 diff --git a/doc/sphinx/07_miniem/ats2.gp b/doc/sphinx/07_miniem/ats2.gp deleted file mode 100644 index 678dc7a2..00000000 --- a/doc/sphinx/07_miniem/ats2.gp +++ /dev/null @@ -1,26 +0,0 @@ -#!/usr/bin/gnuplot -set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "ats2.png" - -set title "MiniEM Throughput Performance on ATS-2/Vortex" font "serif,22" -set xlabel "No. Cells" -set ylabel "(k-cell-steps/sec)" - -# set xrange [1:64] -set yrange [0:30] -set key left top - -# set logscale x 2 -# set logscale y 2 - -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 -set style line 3 linetype 6 dashtype 1 linecolor rgb "#0000FF" linewidth 2 pointtype 6 pointsize 3 - -plot "ats2.csv" using 4:5 with linespoints linestyle 3 diff --git a/doc/sphinx/07_miniem/ats2mem.gp b/doc/sphinx/07_miniem/ats2mem.gp deleted file mode 100644 index e112b362..00000000 --- a/doc/sphinx/07_miniem/ats2mem.gp +++ /dev/null @@ -1,26 +0,0 @@ -#!/usr/bin/gnuplot -set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "ats2mem.png" - -set title "MiniEM Throughput High-water Memory on ATS-2/Vortex" font "serif,22" -set xlabel "No. Cells" -set ylabel "Kokkos CUDA Region Memory (GiB)" - -# set xrange [1:64] -# set yrange [0:30] -set key left top - -# set logscale x 2 -# set logscale y 2 - -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 -set style line 3 linetype 6 dashtype 1 linecolor rgb "#0000FF" linewidth 2 pointtype 6 pointsize 3 - -plot "ats2.csv" using 4:6 with linespoints linestyle 3 diff --git a/doc/sphinx/07_miniem/ats3--all--stats.csv b/doc/sphinx/07_miniem/ats3--all--stats.csv deleted file mode 100644 index 289b1676..00000000 --- a/doc/sphinx/07_miniem/ats3--all--stats.csv +++ /dev/null @@ -1,16 +0,0 @@ -"Key","Min","Mean","Max","Stdev","Range","Variability" -"040|14",153.119,6052.558318181818,6311.29,741.357589901478,6158.171,1.0174492629837077 -"040|07",659.92,6093.1305172413795,6275.48,727.2028282432564,5615.5599999999995,0.9216214857223185 -"040|01",1640.93,1656.0104615384616,1683.32,7.019023354153604,42.38999999999987,0.025597664377445328 -"040|04",5092.86,5189.303076923077,5307.57,45.225480543434934,214.71000000000004,0.041375498177167416 -"040|11",6333.25,6439.564,6517.25,44.55016599295675,184.0,0.028573363041348762 -"060|01",184.455,1497.8349137931034,1536.37,175.66130815545915,1351.915,0.9025794415329943 -"060|04",4628.38,4675.208153846153,4717.88,22.191295935308965,89.5,0.019143532663111702 -"060|07",7580.97,7673.570307692307,7797.07,50.74319221485623,216.09999999999945,0.02816159770939634 -"060|11",8372.58,8475.247076923077,8605.81,45.14647109420198,233.22999999999956,0.027518961734467013 -"060|14",8922.96,9032.294923076923,9190.05,65.05491368170902,267.09000000000015,0.02957055790080577 -"070|01",1509.78,1530.4216923076922,1543.12,6.469242510050624,33.33999999999992,0.02178484542369966 -"070|14",4115.79,6149.412,8423.6,1527.3356016945818,4307.81,0.7005238874871289 -"070|04",4603.75,4677.533538461538,4748.66,29.465356640827416,144.90999999999985,0.03098000234706204 -"070|11",6248.32,8031.6884615384615,8987.42,973.8701674957608,2739.1000000000004,0.34103663421667735 -"070|07",6705.33,6834.55276923077,6947.34,60.509359232366144,242.01000000000022,0.03540977854315967 diff --git a/doc/sphinx/07_miniem/ats3--all.csv b/doc/sphinx/07_miniem/ats3--all.csv deleted file mode 100644 index 843d8721..00000000 --- a/doc/sphinx/07_miniem/ats3--all.csv +++ /dev/null @@ -1,963 +0,0 @@ -Cells,FOM (k-cell-steps/sec),Ranks,Ranks/Domain,Steps,Time (sec),MaxRSS (GiB),Try,Size,File -3375,153.119,112,14,6,0.13225,,0,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_204910_862131/try-00/output-srun-20240303_204910_862131-0.log -768000,659.92,56,7,5804,6754.56,,0,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_203325_862113/try-00/output-srun-20240303_203325_862113-0.log -768000,1640.93,8,1,1563,731.525,,7,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_185136_862100/try-07/output-srun-20240303_185136_862100-7.log -768000,1642.94,8,1,1563,730.634,,3,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_184127_862085/try-03/output-srun-20240303_184127_862085-3.log -768000,1643.77,8,1,1563,730.261,,2,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_163312_862055/try-02/output-srun-20240303_163312_862055-2.log -768000,1644.21,8,1,1563,730.069,,5,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_203401_862115/try-05/output-srun-20240303_203401_862115-5.log -768000,1644.49,8,1,1563,729.941,,1,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_163312_862055/try-01/output-srun-20240303_163312_862055-1.log 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-4116000,8934.61,88,11,1541,709.909,,2,70,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_163309_862042/try-02/output-srun-20240303_163309_862042-2.log -4116000,8974.32,88,11,1541,706.767,,7,70,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_163309_862042/try-07/output-srun-20240303_163309_862042-7.log -4116000,8978.76,88,11,1541,706.418,,3,70,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_163309_862042/try-03/output-srun-20240303_163309_862042-3.log -4116000,8978.86,88,11,1541,706.41,,6,70,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_163309_862042/try-06/output-srun-20240303_163309_862042-6.log -4116000,8987.42,88,11,1541,705.737,,5,70,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--ultima01/run-20240303_163309_862042/try-05/output-srun-20240303_163309_862042-5.log diff --git a/doc/sphinx/07_miniem/ats3--memory.csv b/doc/sphinx/07_miniem/ats3--memory.csv deleted file mode 100644 index 29f4e99e..00000000 --- a/doc/sphinx/07_miniem/ats3--memory.csv +++ /dev/null @@ -1,16 +0,0 @@ -FOM,NumRanks,RanksPerDomain,Steps,Time (sec),MaxRSS (GiB),Try,Size,File -0.5816821252260753,8,1,421,723.763,45.491129302978514,0,60,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442425/try-00/output-srun-20231204_235714_442425-0.log -0.36839171491172396,8,1,267,724.772,73.07505493164062,0,70,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442420/try-00/output-srun-20231204_235714_442420-0.log -1.318421151525527,112,14,1263,957.964,90.48716583251952,0,70,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235711_442416/try-00/output-srun-20231204_235711_442416-0.log -1.650258683586433,56,7,1192,722.311,88.66443252563477,0,70,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235711_442418/try-00/output-srun-20231204_235711_442418-0.log -1.1226106504229145,32,4,812,723.314,79.351611328125,0,70,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442419/try-00/output-srun-20231204_235714_442419-0.log -1.7814883260525685,32,4,1285,721.307,49.74226379394531,0,60,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442424/try-00/output-srun-20231204_235714_442424-0.log -2.1068750446514626,8,1,1563,741.857,14.063874053955079,0,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442430/try-00/output-srun-20231204_235714_442430-0.log -2.1322522173485905,88,11,1541,722.71,92.2584129333496,0,70,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235711_442417/try-00/output-srun-20231204_235711_442417-0.log -2.8802698145025296,56,7,2135,741.25,54.826985168457036,0,60,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442423/try-00/output-srun-20231204_235714_442423-0.log -3.238722379861186,88,11,2349,725.286,61.43948822021484,0,60,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442422/try-00/output-srun-20231204_235714_442422-0.log -3.4770563157446412,112,14,2490,716.123,62.39728393554687,0,60,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442421/try-00/output-srun-20231204_235714_442421-0.log -6.468235208060437,32,4,4775,738.223,17.055126953125,0,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442429/try-00/output-srun-20231204_235714_442429-0.log -7.817561497297391,56,7,5804,742.431,21.522559356689452,0,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442428/try-00/output-srun-20231204_235714_442428-0.log -8.056042969131664,88,11,6019,747.141,25.717409515380858,0,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442427/try-00/output-srun-20231204_235714_442427-0.log -8.275302567958537,112,14,5855,707.527,28.280369567871098,0,40,/usr/projects/hpctest/amagela/ats-5/MiniEM/lb/doc/sphinx/07_miniem/runs--memory/run-20231204_235714_442426/try-00/output-srun-20231204_235714_442426-0.log diff --git a/doc/sphinx/07_miniem/cts1mem-0.25.gp b/doc/sphinx/07_miniem/ats3-0768k-mem.gp similarity index 52% rename from doc/sphinx/07_miniem/cts1mem-0.25.gp rename to doc/sphinx/07_miniem/ats3-0768k-mem.gp index fcd5743d..69cbc2b5 100644 --- a/doc/sphinx/07_miniem/cts1mem-0.25.gp +++ b/doc/sphinx/07_miniem/ats3-0768k-mem.gp @@ -1,13 +1,14 @@ #!/usr/bin/gnuplot set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "cts1mem-0.25.png" +set output "ats3-0768k-mem.png" -set title "MiniEM Strong Scaling High-water Memory on CTS-1/Manzano (0.25 GiB/PE)" font "serif,22" -set xlabel "No. Processing Elements" +set title "MiniEM Strong Scaling Memory on ATS-3/Crossroads w/ 768k Cells" font "serif,22" +set xlabel "Processing Elements on Each NUMA Domain" set ylabel "Maximum Resident Set Size (GiB)" -set xrange [1:64] +set xrange [0.0625:1] set key left top +set xtics ("6.25%%" 0.0625, "12.5%%" 0.125, "25%%" 0.25, "50%%" 0.5, "100%%" 1.0) set logscale x 2 # set logscale y 2 @@ -21,4 +22,5 @@ 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 "cts1-0.25.csv" using 1:4 with linespoints linestyle 1 +# plot "ats3.csv" every ::0::4 using 2:5 with linespoints linestyle 1 +plot "ats3-0768k.csv" using 2:5 with linespoints linestyle 1 diff --git a/doc/sphinx/07_miniem/ats3-0768k.csv b/doc/sphinx/07_miniem/ats3-0768k.csv new file mode 100644 index 00000000..a6d35acb --- /dev/null +++ b/doc/sphinx/07_miniem/ats3-0768k.csv @@ -0,0 +1,6 @@ +PEs / NUMA Domain,PEs / NUMA Domain (%),Inputfile Elements,Cells,MaxRSS (GiB),Actual FOM (k-cell-steps/sec),Ideal FOM (k-cell-steps/sec) +1,0.071,40,768000,18.10,1683.32,1683.32 +4,0.286,40,768000,23.62,5307.57,6733.28 +7,0.500,40,768000,29.49,6275.48,11783.24 +11,0.786,40,768000,37.49,6517.25,18516.52 +14,1.000,40,768000,43.25,6311.29,23566.48 diff --git a/doc/sphinx/07_miniem/ats3-0768k.gp b/doc/sphinx/07_miniem/ats3-0768k.gp new file mode 100644 index 00000000..ecf401af --- /dev/null +++ b/doc/sphinx/07_miniem/ats3-0768k.gp @@ -0,0 +1,26 @@ +#!/usr/bin/gnuplot +set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' +set output "ats3-0768k.png" + +set title "MiniEM Strong Scaling Performance on ATS-3/Crossroads w/ 768k Cells" font "serif,22" +set xlabel "Processing Elements on Each NUMA Domain" +set ylabel "Figure of Merit (kilo-cell-steps/sec)" + +set xrange [0.0625:1] +set key left top +set xtics ("6.25%%" 0.0625, "12.5%%" 0.125, "25%%" 0.25, "50%%" 0.5, "100%%" 1.0) + +set logscale x 2 +set logscale y 2 + +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 "ats3.csv" every ::0::4 using 2:6 with linespoints linestyle 1, "" every ::0::4 using 2:7 with line linestyle 2 +plot "ats3-0768k.csv" using 2:6 with linespoints linestyle 1, "" using 2:7 with line linestyle 2 diff --git a/doc/sphinx/07_miniem/cts1mem-1.00.gp b/doc/sphinx/07_miniem/ats3-2592k-mem.gp similarity index 52% rename from doc/sphinx/07_miniem/cts1mem-1.00.gp rename to doc/sphinx/07_miniem/ats3-2592k-mem.gp index 979a8104..d3029cc9 100644 --- a/doc/sphinx/07_miniem/cts1mem-1.00.gp +++ b/doc/sphinx/07_miniem/ats3-2592k-mem.gp @@ -1,13 +1,14 @@ #!/usr/bin/gnuplot set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "cts1mem-1.00.png" +set output "ats3-2592k-mem.png" -set title "MiniEM Strong Scaling High-water Memory on CTS-1/Manzano (1.00 GiB/PE)" font "serif,22" -set xlabel "No. Processing Elements" +set title "MiniEM Strong Scaling Memory on ATS-3/Crossroads w/ 2592k Cells" font "serif,22" +set xlabel "Processing Elements on Each NUMA Domain" set ylabel "Maximum Resident Set Size (GiB)" -set xrange [1:64] +set xrange [0.0625:1] set key left top +set xtics ("6.25%%" 0.0625, "12.5%%" 0.125, "25%%" 0.25, "50%%" 0.5, "100%%" 1.0) set logscale x 2 # set logscale y 2 @@ -21,4 +22,5 @@ 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 "cts1-1.00.csv" using 1:4 with linespoints linestyle 1 +# plot "ats3.csv" every ::0::4 using 2:5 with linespoints linestyle 1 +plot "ats3-2592k.csv" using 2:5 with linespoints linestyle 1 diff --git a/doc/sphinx/07_miniem/ats3-2592k.csv b/doc/sphinx/07_miniem/ats3-2592k.csv new file mode 100644 index 00000000..1207dc17 --- /dev/null +++ b/doc/sphinx/07_miniem/ats3-2592k.csv @@ -0,0 +1,6 @@ +PEs / NUMA Domain,PEs / NUMA Domain (%),Inputfile Elements,Cells,MaxRSS (GiB),Actual FOM (k-cell-steps/sec),Ideal FOM (k-cell-steps/sec) +1,0.071,60,2592000,57.02,1536.37,1536.37 +4,0.286,60,2592000,63.76,4717.88,6145.48 +7,0.500,60,2592000,69.93,7797.07,10754.59 +11,0.786,60,2592000,78.65,8605.81,16900.07 +14,1.000,60,2592000,83.95,9190.05,21509.18 diff --git a/doc/sphinx/07_miniem/ats3-2592k.gp b/doc/sphinx/07_miniem/ats3-2592k.gp new file mode 100644 index 00000000..31b52a4f --- /dev/null +++ b/doc/sphinx/07_miniem/ats3-2592k.gp @@ -0,0 +1,26 @@ +#!/usr/bin/gnuplot +set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' +set output "ats3-2592k.png" + +set title "MiniEM Strong Scaling Performance on ATS-3/Crossroads w/ 2592k Cells" font "serif,22" +set xlabel "Processing Elements on Each NUMA Domain" +set ylabel "Figure of Merit (kilo-cell-steps/sec)" + +set xrange [0.0625:1] +set key left top +set xtics ("6.25%%" 0.0625, "12.5%%" 0.125, "25%%" 0.25, "50%%" 0.5, "100%%" 1.0) + +set logscale x 2 +set logscale y 2 + +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 "ats3.csv" every ::5::9 using 2:6 with linespoints linestyle 1, "" every ::5::9 using 2:7 with line linestyle 2 +plot "ats3-2592k.csv" using 2:6 with linespoints linestyle 1, "" using 2:7 with line linestyle 2 diff --git a/doc/sphinx/07_miniem/cts1mem-2.00.gp b/doc/sphinx/07_miniem/ats3-4116k-mem.gp similarity index 52% rename from doc/sphinx/07_miniem/cts1mem-2.00.gp rename to doc/sphinx/07_miniem/ats3-4116k-mem.gp index 72b2d910..be06384e 100644 --- a/doc/sphinx/07_miniem/cts1mem-2.00.gp +++ b/doc/sphinx/07_miniem/ats3-4116k-mem.gp @@ -1,13 +1,14 @@ #!/usr/bin/gnuplot set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "cts1mem-2.00.png" +set output "ats3-4116k-mem.png" -set title "MiniEM Strong Scaling High-water Memory on CTS-1/Manzano (2.00 GiB/PE)" font "serif,22" -set xlabel "No. Processing Elements" +set title "MiniEM Strong Scaling Memory on ATS-3/Crossroads w/ 4116k Cells" font "serif,22" +set xlabel "Processing Elements on Each NUMA Domain" set ylabel "Maximum Resident Set Size (GiB)" -set xrange [1:64] +set xrange [0.0625:1] set key left top +set xtics ("6.25%%" 0.0625, "12.5%%" 0.125, "25%%" 0.25, "50%%" 0.5, "100%%" 1.0) set logscale x 2 # set logscale y 2 @@ -21,4 +22,5 @@ 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 "cts1-2.00.csv" using 1:4 with linespoints linestyle 1 +# plot "ats3.csv" every ::0::4 using 2:5 with linespoints linestyle 1 +plot "ats3-4116k.csv" using 2:5 with linespoints linestyle 1 diff --git a/doc/sphinx/07_miniem/ats3-4116k.csv b/doc/sphinx/07_miniem/ats3-4116k.csv new file mode 100644 index 00000000..3b10819b --- /dev/null +++ b/doc/sphinx/07_miniem/ats3-4116k.csv @@ -0,0 +1,6 @@ +PEs / NUMA Domain,PEs / NUMA Domain (%),Inputfile Elements,Cells,MaxRSS (GiB),Actual FOM (k-cell-steps/sec),Ideal FOM (k-cell-steps/sec) +1,0.071,70,4116000,89.77,1543.12,1543.12 +4,0.286,70,4116000,96.05,4748.66,6172.48 +7,0.500,70,4116000,102.91,6947.34,10801.84 +11,0.786,70,4116000,111.37,8987.42,16974.32 +14,1.000,70,4116000,117.42,8423.60,21603.68 diff --git a/doc/sphinx/07_miniem/ats3-4116k.gp b/doc/sphinx/07_miniem/ats3-4116k.gp new file mode 100644 index 00000000..2551ace8 --- /dev/null +++ b/doc/sphinx/07_miniem/ats3-4116k.gp @@ -0,0 +1,26 @@ +#!/usr/bin/gnuplot +set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' +set output "ats3-4116k.png" + +set title "MiniEM Strong Scaling Performance on ATS-3/Crossroads w/ 4116k Cells" font "serif,22" +set xlabel "Processing Elements on Each NUMA Domain" +set ylabel "Figure of Merit (kilo-cell-steps/sec)" + +set xrange [0.0625:1] +set key left top +set xtics ("6.25%%" 0.0625, "12.5%%" 0.125, "25%%" 0.25, "50%%" 0.5, "100%%" 1.0) + +set logscale x 2 +set logscale y 2 + +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 "ats3.csv" every ::10::14 using 2:6 with linespoints linestyle 1, "" every ::10::14 using 2:7 with line linestyle 2 +plot "ats3-4116k.csv" using 2:6 with linespoints linestyle 1, "" using 2:7 with line linestyle 2 diff --git a/doc/sphinx/07_miniem/cts1-0.25.csv b/doc/sphinx/07_miniem/cts1-0.25.csv deleted file mode 100644 index d7bbd756..00000000 --- a/doc/sphinx/07_miniem/cts1-0.25.csv +++ /dev/null @@ -1,8 +0,0 @@ -No. Cores,Actual,Ideal,Memory (GiB) -1,0.726973,0.726973,3.67 -2,1.322235,1.453946,3.90 -4,2.429986,2.907891,4.26 -8,3.839851,5.815782,4.98 -16,5.324459,11.631565,6.34 -32,6.908711,23.263130,9.00 -48,6.963499,34.894695,11.69 diff --git a/doc/sphinx/07_miniem/cts1-0.25.gp b/doc/sphinx/07_miniem/cts1-0.25.gp deleted file mode 100644 index 88113b5a..00000000 --- a/doc/sphinx/07_miniem/cts1-0.25.gp +++ /dev/null @@ -1,24 +0,0 @@ -#!/usr/bin/gnuplot -set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "cts1-0.25.png" - -set title "MiniEM Strong Scaling Performance on CTS-1/Manzano (0.25 GiB/PE)" font "serif,22" -set xlabel "No. Processing Elements" -set ylabel "Figure of Merit (time steps/sec)" - -set xrange [1:64] -set key left top - -set logscale x 2 -set logscale y 2 - -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 "cts1-0.25.csv" using 1:2 with linespoints linestyle 1, "" using 1:3 with line linestyle 2 diff --git a/doc/sphinx/07_miniem/cts1-0.50.csv b/doc/sphinx/07_miniem/cts1-0.50.csv deleted file mode 100644 index 281d2a01..00000000 --- a/doc/sphinx/07_miniem/cts1-0.50.csv +++ /dev/null @@ -1,8 +0,0 @@ -No. Cores,Actual,Ideal,Memory (GiB) -1,0.184367,0.184367,14.13 -2,0.360493,0.368734,14.96 -4,0.659742,0.737468,15.24 -8,1.249861,1.474936,15.89 -16,2.301861,2.949873,17.48 -32,3.269871,5.899745,20.19 -48,3.138137,8.849618,23.28 diff --git a/doc/sphinx/07_miniem/cts1-0.50.gp b/doc/sphinx/07_miniem/cts1-0.50.gp deleted file mode 100644 index dd737ee1..00000000 --- a/doc/sphinx/07_miniem/cts1-0.50.gp +++ /dev/null @@ -1,24 +0,0 @@ -#!/usr/bin/gnuplot -set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "cts1-0.50.png" - -set title "MiniEM Strong Scaling Performance on CTS-1/Manzano (0.50 GiB/PE)" font "serif,22" -set xlabel "No. Processing Elements" -set ylabel "Figure of Merit (time steps/sec)" - -set xrange [1:64] -set key left top - -set logscale x 2 -set logscale y 2 - -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 "cts1-0.50.csv" using 1:2 with linespoints linestyle 1, "" using 1:3 with line linestyle 2 diff --git a/doc/sphinx/07_miniem/cts1-1.00.csv b/doc/sphinx/07_miniem/cts1-1.00.csv deleted file mode 100644 index 2e272cd8..00000000 --- a/doc/sphinx/07_miniem/cts1-1.00.csv +++ /dev/null @@ -1,8 +0,0 @@ -No. Cores,Actual,Ideal,Memory (GiB) -1,0.092176,0.092176,27.36 -2,0.173295,0.184352,28.42 -4,0.345268,0.368703,29.44 -8,0.622429,0.737406,29.90 -16,1.072192,1.474812,31.52 -32,1.648567,2.949625,35.14 -48,1.649011,4.424437,37.82 diff --git a/doc/sphinx/07_miniem/cts1-1.00.gp b/doc/sphinx/07_miniem/cts1-1.00.gp deleted file mode 100644 index ba8e8ce3..00000000 --- a/doc/sphinx/07_miniem/cts1-1.00.gp +++ /dev/null @@ -1,24 +0,0 @@ -#!/usr/bin/gnuplot -set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "cts1-1.00.png" - -set title "MiniEM Strong Scaling Performance on CTS-1/Manzano (1.00 GiB/PE)" font "serif,22" -set xlabel "No. Processing Elements" -set ylabel "Figure of Merit (time steps/sec)" - -set xrange [1:64] -set key left top - -set logscale x 2 -set logscale y 2 - -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 "cts1-1.00.csv" using 1:2 with linespoints linestyle 1, "" using 1:3 with line linestyle 2 diff --git a/doc/sphinx/07_miniem/cts1-2.00.csv b/doc/sphinx/07_miniem/cts1-2.00.csv deleted file mode 100644 index a7d0d7da..00000000 --- a/doc/sphinx/07_miniem/cts1-2.00.csv +++ /dev/null @@ -1,8 +0,0 @@ -No. Cores,Actual,Ideal,Memory (GiB) -1,0.028400,0.028400,81.21 -2,0.055194,0.056799,83.52 -4,0.114154,0.113599,84.73 -8,0.203932,0.227198,86.44 -16,0.377767,0.454395,89.14 -32,0.550832,0.908791,91.91 -48,0.520269,1.363186,95.21 diff --git a/doc/sphinx/07_miniem/cts1-2.00.gp b/doc/sphinx/07_miniem/cts1-2.00.gp deleted file mode 100644 index 90a59fb4..00000000 --- a/doc/sphinx/07_miniem/cts1-2.00.gp +++ /dev/null @@ -1,24 +0,0 @@ -#!/usr/bin/gnuplot -set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "cts1-2.00.png" - -set title "MiniEM Strong Scaling Performance on CTS-1/Manzano (2.00 GiB/PE)" font "serif,22" -set xlabel "No. Processing Elements" -set ylabel "Figure of Merit (time steps/sec)" - -set xrange [1:64] -set key left top - -set logscale x 2 -set logscale y 2 - -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 "cts1-2.00.csv" using 1:2 with linespoints linestyle 1, "" using 1:3 with line linestyle 2 diff --git a/doc/sphinx/07_miniem/cts1.csv b/doc/sphinx/07_miniem/cts1.csv deleted file mode 100644 index 581fcf88..00000000 --- a/doc/sphinx/07_miniem/cts1.csv +++ /dev/null @@ -1,8 +0,0 @@ -No. Cores,Actual,Ideal,Memory (GiB) -1,0.038064439,0.038064439,62.6 -2,0.075867354,0.076128877,64.6 -4,0.148700148,0.152257754,65.5 -8,0.274408649,0.304515508,67.7 -16,0.472957847,0.609031016,69.4 -32,0.665584968,1.218062033,72.2 -48,0.684972167,1.827093049,75.4 diff --git a/doc/sphinx/07_miniem/cts1.gp b/doc/sphinx/07_miniem/cts1.gp deleted file mode 100644 index e4a3c085..00000000 --- a/doc/sphinx/07_miniem/cts1.gp +++ /dev/null @@ -1,24 +0,0 @@ -#!/usr/bin/gnuplot -set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "cts1.png" - -set title "MiniEM Strong Scaling Performance on CTS-1/Manzano" font "serif,22" -set xlabel "No. Processing Elements" -set ylabel "Figure of Merit (time steps/sec)" - -set xrange [1:64] -set key left top - -set logscale x 2 -set logscale y 2 - -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 "cts1.csv" using 1:2 with linespoints linestyle 1, "" using 1:3 with line linestyle 2 diff --git a/doc/sphinx/07_miniem/cts1mem-0.50.gp b/doc/sphinx/07_miniem/cts1mem-0.50.gp deleted file mode 100644 index be19f28a..00000000 --- a/doc/sphinx/07_miniem/cts1mem-0.50.gp +++ /dev/null @@ -1,24 +0,0 @@ -#!/usr/bin/gnuplot -set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "cts1mem-0.50.png" - -set title "MiniEM Strong Scaling High-water Memory on CTS-1/Manzano (0.50 GiB/PE)" font "serif,22" -set xlabel "No. Processing Elements" -set ylabel "Maximum Resident Set Size (GiB)" - -set xrange [1:64] -set key left top - -set logscale x 2 -# set logscale y 2 - -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 "cts1-0.50.csv" using 1:4 with linespoints linestyle 1 diff --git a/doc/sphinx/07_miniem/cts1mem.gp b/doc/sphinx/07_miniem/cts1mem.gp deleted file mode 100644 index f27f1d32..00000000 --- a/doc/sphinx/07_miniem/cts1mem.gp +++ /dev/null @@ -1,24 +0,0 @@ -#!/usr/bin/gnuplot -set terminal pngcairo enhanced size 1024, 768 dashed font 'Helvetica,18' -set output "cts1mem.png" - -set title "MiniEM Strong Scaling High-water Memory on CTS-1/Manzano" font "serif,22" -set xlabel "No. Processing Elements" -set ylabel "Maximum Resident Set Size (GiB)" - -set xrange [1:64] -set key left top - -set logscale x 2 -# set logscale y 2 - -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 "cts1.csv" using 1:4 with linespoints linestyle 1 diff --git a/doc/sphinx/07_miniem/metrics_compute.sh b/doc/sphinx/07_miniem/metrics_compute.sh index b76a2ff1..ea336afc 100755 --- a/doc/sphinx/07_miniem/metrics_compute.sh +++ b/doc/sphinx/07_miniem/metrics_compute.sh @@ -1,7 +1,7 @@ #!/bin/bash export DIR_BASE=` pwd -P ` -find . -name "output-srun*.log" -type f -print0 \ +find $1 -name "output-srun*.log" -type f -print0 \ | xargs -0 -I file ./miniem_fom2.py -f file exit 0 diff --git a/doc/sphinx/07_miniem/metrics_rollup.sh b/doc/sphinx/07_miniem/metrics_rollup.sh index 6e7fb2ff..23c23016 100755 --- a/doc/sphinx/07_miniem/metrics_rollup.sh +++ b/doc/sphinx/07_miniem/metrics_rollup.sh @@ -1,6 +1,6 @@ #!/bin/bash -find . -name "output-srun*.csv" -type f -print0 \ +find $1 -name "output-srun*.csv" -type f -print0 \ | xargs -0 -I file cat file \ | sort \ | uniq \ diff --git a/doc/sphinx/07_miniem/miniem.rst b/doc/sphinx/07_miniem/miniem.rst index f0c5c181..85ea26a0 100644 --- a/doc/sphinx/07_miniem/miniem.rst +++ b/doc/sphinx/07_miniem/miniem.rst @@ -6,9 +6,7 @@ This is the documentation for the ATS-5 Benchmark MiniEM. The content herein was created by the following authors (in alphabetical order). - `Anthony M. Agelastos `_ -- `David I. Collins `_ - `Christian A. Glusa `_ -- `Douglas M. Pase `_ - `Roger P. Pawlowski `_ - `Joel O. Stevenson `_ @@ -64,43 +62,37 @@ These parameters are described below. ``X Elements, Y Elements, Z Elements`` This sets the size of the problem, which is the product of these 3 quantities. These parameters are set to other values with the cases shown - herein. + herein. These values should be identical for the calculations herein. Figure of Merit --------------- -Each MiniEM simulation writes out a timer block to STDOUT. The relevant portion -of this block is in the below example. +Each MiniEM simulation writes out a Figure of Merit (FOM) block to +STDOUT. The relevant portion of this block is in the below example. .. code-block:: - Mini-EM: 678.6 [1] {min=678.581, max=678.613, std dev=0.00763025} <1, 3, 4, 3, 4, 6, 7, 10, 7, 3> - | Mini-EM: Total Time: 678.6 - 100% [1] {min=678.581, max=678.613, std dev=0.00763291} <1, 3, 4, 3, 4, 6, 7, 10, 7, 3> - - | | Mini-EM: timestepper: 656.961 - 96.8112% [1] {min=656.96, max=656.961, std dev=0.000231646} <2, 0, 0, 0, 0, 0, 1, 6, 19, 20> - | | | Mini-EM: Advance Time Step: 656.961 - 99.9999% [450] {min=656.96, max=656.961, std dev=0.000263652} <1, 0, 1, 0, 0, 0, 0, 5, 17, 24> - -The quantity of interest (QOI) is "time steps per second," which can be computed -from the above table by extracting the number of timesteps (last line and within -brackets, is "450" in this example) and dividing by the total time in that -region (the first floating point number on the same line as the number of -timesteps, is "656.961" in this example). - -The number of steps must be large enough so the timestepper time exceeds 600 -(i.e., so it runs for at least 10 minutes). The figure of merit (FOM) is the QOI -for a simulation above the 10 minute mark. - -It is desired to capture the FOM for varying problem sizes sized by the memory -per processing element (PE). A PE is defined as a MPI Rank or software thread. -The sizes desired are approximately 0.25, 0.50, 1.00, 2.00, etc. GiB/PE (stop -when there is insufficient memory to carry on). On systems with GPUs or other -accelerators where this is mapping is unclear, then size the overall problem to -coincide with the highest total problem size for the GPU case herein and keep -scaling up in multiples of 2 until it ceases to fit within the GPU (which would -be the largest problem and stop there). Since the memory varies for MiniEM when -strong scaling, aim to capture these quantities when the system is fully -utilized (i.e., get the memory when all PEs on the node are being used). + ================================= + FOM Calculation + ================================= + Number of cells = 4116000 + Time for Belos Linear Solve = 705.737 seconds + Number of Time Steps (one linear solve per step) = 1541 + FOM ( num_cells * num_steps / solver_time / 1000) = 8987.42 k-cell-steps per second + ================================= + +The number of steps, specified with the ``--numTimeSteps`` command +line option, described below in :ref:`MiniEMRunATS3`), must be large +enough so the time for the Belos Linear Solve is greater than 600 +seconds, i.e., so the solver runs for at least 10 minutes. The figure +of merit (FOM) is the bottom entry in this block, i.e., ``FOM ( +num_cells * num_steps / solver_time / 1000)``. + +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. System Information @@ -108,62 +100,12 @@ System Information The platforms utilized for benchmarking activities are listed and described below. -* Commodity Technology System 1 (CTS-1) with Intel Cascade Lake processors, - known as Manzano at SNL (see :ref:`MiniEMSystemCTS1`) * Crossroads (see :ref:`GlobalSystemATS3`) -* Sierra (see :ref:`GlobalSystemATS2`) - - -.. _MiniEMSystemCTS3: - -CTS-1/Manzano -------------- - -.. note:: - The CTS-1/Manzano system is used as a placeholder for when ATS-3/Crossroads - is available. - -The Manzano HPC cluster has 1,488 compute nodes connected together by a -high-bandwidth, low-latency Intel OmniPath network where each compute node uses -two Intel Xeon Platinum 8268 (Cascade Lake) processors. Each processor has 24 -cores, and each node has 48 physical cores and 96 virtual cores. Each core has a -base frequency of 2.9 GHz and a max frequency of 3.9 GHz. Cores support two -AVX512 SIMD units each, with peak floating-point performance (RPEAK) of 2.9 GHz -x 32 FLOP/clock x 48 cores = 4.45 TF/s. Measured DGEMM performance is just under -3.5 TF/s per node (78.5% efficiency). - -Compute nodes are a Non-Uniform Memory Access (NUMA) design, with each processor -representing a separate NUMA domain. Each processor (domain) supports six -channels of 2,933 MT/s DDR4 memory. Total memory capacity is 4 GB/core, or 192 -GB/node. Memory bandwidth for the node is 12 channels x 8 bytes / channel x -2.933 GT/s = 281.568 GB/s, and measured STREAM TRIAD throughput for local memory -access is approximately 215 GB/s (76% efficiency). Cache design uses three -levels of cache, with L1 using separate instruction and data caches, L2 unifying -instruction and data, and L3 being shared across all cores in the processor. The -cache size is 1.5 MB/core, 35.75 MB/processor, or 71.5 MB/node. - Building ======== -Instructions are provided on how to build MiniEM for the following systems: - -* Generic (see :ref:`MiniEMBuildGeneric`) -* Commodity Technology System 1 (CTS-1) with Intel Cascade Lake processors, - known as Manzano at SNL (see :ref:`MiniEMBuildCTS1`) -* Advanced Technology System 2 (ATS-2), also known as Sierra (see - :ref:`MiniEMBuildATS2`) - -If submodules were cloned within this repository, then the source code to build -MiniEM is already present at the top level within the "trilinos" folder. - - -.. _MiniEMBuildGeneric: - -Generic -------- - MiniEM is a part of Trilinos, so building Trilinos and its dependencies is required. The [TrilinosBuild]_ documentation provides a lot of guidance. Information to augment the official Trilinos documentation is provided below. @@ -171,62 +113,42 @@ Information to augment the official Trilinos documentation is provided below. The following requirements are present for MiniEM. * CMake version 3.23 or greater -* GNU GCC version 8.0 or greater * OpenMPI version 3.1 or greater +* Compilers ca. 2023 -Then, a suitable environment will need to be set. +Detailed instructions are provided on how to build MiniEM for the +following systems: -* Set ``NETLIB_OPTIMIZED_BLAS_LIBS`` to something suitable on the new system -* Set the usual ``AR``, ``NM``, ``RANLIB``, ``LD``, ``CXX``, ``CC``, ``FC``, ``F77``, ``F90``, ``CPPFLAGS``, ``CFLAGS``, ``CXXFLAGS``, ``FFLAGS``, ``FCFLAGS``, ``LDFLAGS`` +* Advanced Technology System 3 (ATS-3), also known as Crossroads (see + :ref:`MiniEMBuildATS3`) -Then, build zlib, HDF5, PnetCDF, netCDF, Netlib, and Trilinos in a similar -manner to what's in :ref:`MiniEMBuildRecipe`. +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. -.. _MiniEMBuildCTS1: +.. _MiniEMBuildATS3: -CTS-1/Manzano -------------- +Crossroads +---------- -.. note:: - The CTS-1/Manzano system is used as a placeholder for when ATS-3/Crossroads - is available. +Instructions for building on Crossroads are provided below. The +"miniem_build" folder contains the following items. -Instructions for building on Manzano are provided below. - -.. code-block:: bash - - module unload intel - module unload openmpi-intel - module use /apps/modules/modulefiles-apps/cde/v3/ - module load cde/v3/devpack/gcc-ompi - mkdir build-trilinos - pushd build-trilinos - bash ../helper-scripts/configure_trilinos.sh - make -j 16 - make install - - -.. _MiniEMBuildATS2: - -ATS-2/Vortex ------------- - -Instructions for building on ATS-2 are provided below. - -.. code-block:: bash - - export BASEPATH=${PWD} - export LLNL_USE_OMPI_VARS=y - export OMPI_CC=gcc - export OMPI_CXX=${BASEPATH}/Trilinos/packages/kokkos/bin/nvcc_wrapper - mkdir -p build-trilinos - cd build-trilinos - cp -p ../files-from-David_used/* . - . ./load_matching_env.sh - cmake -C vortex-cuda-opt-Volta70-static-rdc.cmake -D CMAKE_INSTALL_PREFIX=/projects/scs/josteve/projects/miniEM/vortex/build-trilinos/tpls/trilinos/miniem-shared-opt /projects/scs/josteve/projects/miniEM/vortex/Trilinos/ - cmake --build . -j 16 - cmake --install . +``build-crossroads.sh`` + This script carries out the build. All that should be needed is for + the `spack.yaml` to be generated from `template.yaml` and then for + this script to be executed. +``spack`` + This contains a specific checkout of Spack needed to build + MiniEM. This will need to be patched; the patch is taken care of + via ``build-crossroads.sh``. +``spack-fixes-v0.21.0.patch`` + This is the patch file needed to address issues within the Spack + checkout. +``template.yaml`` + This file needs to be copied into ``spack.yaml`` and edited to + contain the paths to the necessary items. Running @@ -234,78 +156,18 @@ Running Instructions are provided on how to run MiniEM for the following systems: -* Commodity Technology System 1 (CTS-1) with Intel Cascade Lake processors, - known as Manzano at SNL (see :ref:`MiniEMRunCTS1`) -* Advanced Technology System 2 (ATS-2), also known as Sierra (see - :ref:`MiniEMRunATS2`) - - -.. _MiniEMRunCTS1: - -CTS-1/Manzano -------------- - -.. note:: - The CTS-1/Manzano system is used as a placeholder for when ATS-3/Crossroads - is available. - -An example of how to run the test case on Manzano with 450 time steps is -provided below. - -.. code-block:: bash - - basepath=`pwd -P` - installpath="build-trilinos/tpls/trilinos/miniem-shared-opt/example/PanzerMiniEM" - exe=${basepath}/${installpath}/PanzerMiniEM_BlockPrec.exe - - module unload intel - module unload openmpi-intel - module use /apps/modules/modulefiles-apps/cde/v3/ - module load cde/v3/devpack/gcc-ompi - - export OMP_PLACES=threads - export OMP_PROC_BIND=true - export OMP_NUM_THREADS=1 +* Advanced Technology System 3 (ATS-3), also known as Crossroads (see + :ref:`MiniEMRunATS3`) - mpiexec \ - --np 48 \ - --bind-to socket \ - --map-by socket:span \ - "${exe}" \ - --stacked-timer --solver=MueLu-RefMaxwell \ - --numTimeSteps=450 --linAlgebra=Tpetra \ - --inputFile="${basepath}/maxwell-large.xml" \ - >"miniem-sim.out" 2>&1 +.. _MiniEMRunATS3: -.. _MiniEMRunATS2: +Crossroads +---------- -ATS-2/Vortex ------------- - -An example of how to run the test case with a single GPU on Sierra is provided -below. - -.. code-block:: bash - - basepath=`pwd -P` - installpath="build-trilinos/tpls/trilinos/miniem-shared-opt/example/PanzerMiniEM" - exe=${basepath}/${installpath}/PanzerMiniEM_BlockPrec.exe - - # convenience script that loads appropriate modules - pushd build-trilinos - . ./load_matching_env.sh - unset KOKKOS_NUM_DEVICES - export TPETRA_ASSUME_CUDA_AWARE_MPI=1 - popd - - jsrun -M "-gpu -disable_gdr" \ - -n 1 -a 1 -c 1 -g 1 -d packed \ - "${exe}" \ - --stacked-timer --solver=MueLu-RefMaxwell \ - --numTimeSteps=450 --linAlgebra=Tpetra \ - --inputFile="{basepath}/maxwell-large.xml" \ - >"miniem-sim.out" 2>&1 +An example of how to run the test case on Crossroads is provided +within the script (:download:`run-crossroads-mapcpu.sh +`) Verification of Results @@ -313,147 +175,100 @@ Verification of Results Results from MiniEM are provided on the following systems: -* Commodity Technology System 1 (CTS-1) with Intel Cascade Lake processors, - known as Manzano at SNL (see :ref:`MiniEMResultsCTS1`) -* Advanced Technology System 2 (ATS-2), also known as Sierra (see - :ref:`MiniEMResultsATS2`) +* Advanced Technology System 3 (ATS-3), also known as Crossroads (see + :ref:`MiniEMResultsATS3`) -.. _MiniEMResultsCTS1: +.. _MiniEMResultsATS3: -CTS-1/Manzano -------------- +Crossroads +---------- -.. note:: - The CTS-1/Manzano system is used as a placeholder for when ATS-3/Crossroads - is available. +Strong scaling performance (i.e., fixed problem size being run on +different MPI rank counts) plots of MiniEM on Crossroads are provided +within the following subsections. -Strong scaling performance (i.e., fixed problem size being run on different MPI -rank counts) plots of MiniEM on CTS-1/Manzano are provided within the following -subsections. +Problem Size 40 (18-43 GiB) +^^^^^^^^^^^^^^^^^^^^^^^^^^^ -Problem Size 25x25x25 (0.25 GiB/PE) -^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ +This problem size corresponds to X, Y, and Z Element values set to 40 +which results in an overall discretization that contains 768,000 +cells. -.. csv-table:: MiniEM Strong Scaling Performance and Memory on Manzano with 25x25x25 elements (0.25 GiB/PE) - :file: cts1-0.25.csv +.. csv-table:: MiniEM Strong Scaling Performance and Memory on Crossroads with 768k cells (18-43 GiB) + :file: ats3-0768k.csv :align: center - :widths: 10, 10, 10, 10 + :widths: 10, 10, 10, 10, 10, 10, 10 :header-rows: 1 -.. figure:: cts1-0.25.png +.. figure:: ats3-0768k.png :align: center :scale: 50% - :alt: MiniEM Strong Scaling Performance on Manzano with 25x25x25 elements (0.25 GiB/PE) + :alt: MiniEM Strong Scaling Performance on Crossroads with 768k cells (18-43 GiB) - MiniEM Strong Scaling Performance on Manzano with 25x25x25 elements (0.25 GiB/PE) + MiniEM Strong Scaling Performance on Crossroads with 768k cells (18-43 GiB) -.. figure:: cts1mem-0.25.png +.. figure:: ats3-0768k-mem.png :align: center :scale: 50% - :alt: MiniEM Strong Scaling Memory on Manzano with 25x25x25 elements (0.25 GiB/PE) + :alt: MiniEM Strong Scaling Memory on Crossroads with 768k cells (18-43 GiB) - MiniEM Strong Scaling Memory on Manzano with 25x25x25 elements (0.25 GiB/PE) + MiniEM Strong Scaling Memory on Crossroads with 768k cells (18-43 GiB) -Problem Size 40x40x40 (0.50 GiB/PE) -^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ +Problem Size 60 (57-84 GiB) +^^^^^^^^^^^^^^^^^^^^^^^^^^^ -.. csv-table:: MiniEM Strong Scaling Performance and Memory on Manzano with 40x40x40 elements (0.50 GiB/PE) - :file: cts1-0.50.csv - :align: center - :widths: 10, 10, 10, 10 - :header-rows: 1 +This problem size corresponds to X, Y, and Z Element values set to 60 +which results in an overall discretization that contains 2,592,000 +cells. -.. figure:: cts1-0.50.png +.. csv-table:: MiniEM Strong Scaling Performance and Memory on Crossroads with 2,592k cells (57-84 GiB) + :file: ats3-2592k.csv :align: center - :scale: 50% - :alt: MiniEM Strong Scaling Performance on Manzano with 40x40x40 elements (0.50 GiB/PE) - - MiniEM Strong Scaling Performance on Manzano with 40x40x40 elements (0.50 GiB/PE) - -.. figure:: cts1mem-0.50.png - :align: center - :scale: 50% - :alt: MiniEM Strong Scaling Memory on Manzano with 40x40x40 elements (0.50 GiB/PE) - - MiniEM Strong Scaling Memory on Manzano with 40x40x40 elements (0.50 GiB/PE) - -Problem Size 50x50x50 (1.00 GiB/PE) -^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ - -.. csv-table:: MiniEM Strong Scaling Performance and Memory on Manzano with 50x50x50 elements (1.00 GiB/PE) - :file: cts1-1.00.csv - :align: center - :widths: 10, 10, 10, 10 + :widths: 10, 10, 10, 10, 10, 10, 10 :header-rows: 1 -.. figure:: cts1-1.00.png +.. figure:: ats3-2592k.png :align: center :scale: 50% - :alt: MiniEM Strong Scaling Performance on Manzano with 50x50x50 elements (1.00 GiB/PE) + :alt: MiniEM Strong Scaling Performance on Crossroads with 2,592k cells (57-84 GiB) - MiniEM Strong Scaling Performance on Manzano with 50x50x50 elements (1.00 GiB/PE) + MiniEM Strong Scaling Performance on Crossroads with 2,592k cells (57-84 GiB) -.. figure:: cts1mem-1.00.png +.. figure:: ats3-2592k-mem.png :align: center :scale: 50% - :alt: MiniEM Strong Scaling Memory on Manzano with 50x50x50 elements (1.00 GiB/PE) + :alt: MiniEM Strong Scaling Memory on Crossroads with 2,592k cells (57-84 GiB) - MiniEM Strong Scaling Memory on Manzano with 50x50x50 elements (1.00 GiB/PE) + MiniEM Strong Scaling Memory on Crossroads with 2,592k cells (57-84 GiB) -Problem Size 72x72x72 (2.00 GiB/PE) -^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ -.. csv-table:: MiniEM Strong Scaling Performance and Memory on Manzano with 72x72x72 elements (2.00 GiB/PE) - :file: cts1-2.00.csv - :align: center - :widths: 10, 10, 10, 10 - :header-rows: 1 - -.. figure:: cts1-2.00.png - :align: center - :scale: 50% - :alt: MiniEM Strong Scaling Performance on Manzano with 72x72x72 elements (2.00 GiB/PE) - - MiniEM Strong Scaling Performance on Manzano with 72x72x72 elements (2.00 GiB/PE) - -.. figure:: cts1mem-2.00.png - :align: center - :scale: 50% - :alt: MiniEM Strong Scaling Memory on Manzano with 72x72x72 elements (2.00 GiB/PE) +Problem Size 70 (89-118 GiB) +^^^^^^^^^^^^^^^^^^^^^^^^^^^^ - MiniEM Strong Scaling Memory on Manzano with 72x72x72 elements (2.00 GiB/PE) +This problem size corresponds to X, Y, and Z Element values set to 70 +which results in an overall discretization that contains 4,116,000 +cells. - -.. _MiniEMResultsATS2: - -ATS-2/Vortex ------------- - -Throughput performance, i.e., changing the problem size but fixing the resources -being used to a single MPI rank atop the Power9 CPU and a single Nvidia V100 -GPU, of MiniEM on ATS-2/Vortex is provided within the following table and -figure. - -.. csv-table:: MiniEM Throughput Performance and Memory on ATS-2/Vortex - :file: ats2.csv +.. csv-table:: MiniEM Strong Scaling Performance and Memory on Crossroads with 4,116k cells (57-84 GiB) + :file: ats3-4116k.csv :align: center - :widths: 10, 10, 10, 10, 10, 10 + :widths: 10, 10, 10, 10, 10, 10, 10 :header-rows: 1 -.. figure:: ats2.png +.. figure:: ats3-4116k.png :align: center :scale: 50% - :alt: MiniEM Throughput Performance on ATS-2/Vortex + :alt: MiniEM Strong Scaling Performance on Crossroads with 4,116k cells (57-84 GiB) - MiniEM Throughput Performance on ATS-2/Vortex + MiniEM Strong Scaling Performance on Crossroads with 4,116k cells (57-84 GiB) -.. figure:: ats2mem.png +.. figure:: ats3-4116k-mem.png :align: center :scale: 50% - :alt: MiniEM Throughput Memory on ATS-2/Vortex + :alt: MiniEM Strong Scaling Memory on Crossroads with 4,116k cells (57-84 GiB) - MiniEM Throughput Memory on ATS-2/Vortex + MiniEM Strong Scaling Memory on Crossroads with 4,116k cells (57-84 GiB) References @@ -470,14 +285,3 @@ References https://docs.trilinos.org/files/TrilinosBuildReference.html. [Accessed: 26- Mar- 2023] .. [Maxwell-Large] Trilinos developers, 'maxwell-large.xml', 2023. [Online]. Available: https://github.com/trilinos/Trilinos/blob/master/packages/panzer/mini-em/example/BlockPrec/maxwell-large.xml. [Accessed: 22- Feb- 2023] -.. [Sierra-LLNL] Lawrence Livermore National Laboratory, 'Sierra | HPC @ LLNL', 2023. [Online]. Available: https://hpc.llnl.gov/hardware/compute-platforms/sierra. [Accessed: 26- Mar- 2023] - - -.. _MiniEMBuildRecipe: - -Build Recipe -============ - -.. literalinclude:: recipe.sh - :language: bash - :linenos: diff --git a/doc/sphinx/07_miniem/miniem_fom2.py b/doc/sphinx/07_miniem/miniem_fom2.py index 882153d0..53e21b06 100755 --- a/doc/sphinx/07_miniem/miniem_fom2.py +++ b/doc/sphinx/07_miniem/miniem_fom2.py @@ -18,6 +18,7 @@ import xml.etree.ElementTree as ET from collections import OrderedDict import csv +import glob assert sys.version_info >= (3, 5), "Please use Python version 3.5 or later." @@ -264,6 +265,27 @@ def _run_size(self): self.metrics_cache['Size'] = emsize self.logger.info("Size = {}".format(emsize)) + def _run_ldpxi(self): + """Extract items from LDPXI output if present""" + if self.metrics_cache['MaxRSS (GiB)'] is not None: + return + emmaxrss = None + empath = os.path.abspath(self.file_name) + empath = os.path.dirname(empath) + empath = os.path.join(empath, '*ldpxi*.csv') + for file_ldpxi in glob.glob(empath): + with open(file_ldpxi) as fp: + line = fp.readline() + while line: + if "maxrss(KiB)" in line: + emmaxrss = int(line.split(',')[1]) + break + line = fp.readline() + if emmaxrss is not None: + break + self.metrics_cache['MaxRSS (GiB)'] = emmaxrss + self.logger.info("MaxRSS (GiB) = {}".format(emmaxrss)) + def _run_csv(self): """Put stuff into CSV file.""" file_csv = self.file_name.replace('.log', '.csv') @@ -280,6 +302,7 @@ def run(self): self._run_fom() self._run_try() self._run_size() + self._run_ldpxi() self.metrics_cache['File'] = os.path.abspath(self.file_name) self._run_csv()