kernel-scientific

AMD Ryzen 7 1700 Eight-Core testing with a Gigabyte AB350M-Gaming 3-CF (F51g BIOS) and Sapphire AMD Radeon HD 4550 on Ubuntu 20.04 via the Phoronix Test Suite.

HTML result view exported from: https://openbenchmarking.org/result/2301291-HYDR-KERNELS98.

kernel-scientificProcessorMotherboardChipsetMemoryDiskGraphicsAudioMonitorNetworkOSKernelVulkanCompilerFile-SystemScreen Resolutiondefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preemptAMD Ryzen 7 1700 Eight-Core @ 3.50GHz (8 Cores / 16 Threads)Gigabyte AB350M-Gaming 3-CF (F51g BIOS)AMD 17h8GB1000GB Western Digital WD10EFRX-68J + 1000GB Hitachi HDT72101 + 32GB TS32GMTS800 + 1000GB SAMSUNG HD103UJSapphire AMD Radeon HD 4550 512MBAMD RV710/730PLG2488HRealtek RTL8111/8168/8411Ubuntu 20.045.15.0-58-generic (x86_64)1.1.182GCC 9.4.0zfs1920x10801000GB Western Digital WD10EFRX-68J + 1000GB Hitachi HDT72101 + 32GB TS32GMTS800Sapphire AMD Radeon HD 45505.15.30-hdr (x86_64)1024x768OpenBenchmarking.orgKernel Details- Transparent Huge Pages: madviseCompiler Details- --build=x86_64-linux-gnu --disable-vtable-verify --disable-werror --enable-checking=release --enable-clocale=gnu --enable-default-pie --enable-gnu-unique-object --enable-languages=c,ada,c++,go,brig,d,fortran,objc,obj-c++,gm2 --enable-libstdcxx-debug --enable-libstdcxx-time=yes --enable-multiarch --enable-multilib --enable-nls --enable-objc-gc=auto --enable-offload-targets=nvptx-none=/build/gcc-9-Av3uEd/gcc-9-9.4.0/debian/tmp-nvptx/usr,hsa --enable-plugin --enable-shared --enable-threads=posix --host=x86_64-linux-gnu --program-prefix=x86_64-linux-gnu- --target=x86_64-linux-gnu --with-abi=m64 --with-arch-32=i686 --with-default-libstdcxx-abi=new --with-gcc-major-version-only --with-multilib-list=m32,m64,mx32 --with-target-system-zlib=auto --with-tune=generic --without-cuda-driver -v Processor Details- Scaling Governor: acpi-cpufreq ondemand (Boost: Enabled) - CPU Microcode: 0x8001138Python Details- Python 3.8.10Security Details- default: itlb_multihit: Not affected + l1tf: Not affected + mds: Not affected + meltdown: Not affected + mmio_stale_data: Not affected + retbleed: Mitigation of untrained return thunk; SMT vulnerable + spec_store_bypass: Mitigation of SSB disabled via prctl and seccomp + spectre_v1: Mitigation of usercopy/swapgs barriers and __user pointer sanitization + spectre_v2: Mitigation of Retpolines IBPB: conditional STIBP: disabled RSB filling PBRSB-eIBRS: Not affected + srbds: Not affected + tsx_async_abort: Not affected - default mitigations=off: itlb_multihit: Not affected + l1tf: Not affected + mds: Not affected + meltdown: Not affected + mmio_stale_data: Not affected + retbleed: Vulnerable + spec_store_bypass: Vulnerable + spectre_v1: Vulnerable: __user pointer sanitization and usercopy barriers only; no swapgs barriers + spectre_v2: Vulnerable IBPB: disabled STIBP: disabled PBRSB-eIBRS: Not affected + srbds: Not affected + tsx_async_abort: Not affected- 5.15.30-hdr: itlb_multihit: Not affected + l1tf: Not affected + mds: Not affected + meltdown: Not affected + spec_store_bypass: Vulnerable + spectre_v1: Vulnerable: __user pointer sanitization and usercopy barriers only; no swapgs barriers + spectre_v2: Vulnerable IBPB: disabled STIBP: disabled + srbds: Not affected + tsx_async_abort: Not affected- 5.15.30-hdr vol preempt: itlb_multihit: Not affected + l1tf: Not affected + mds: Not affected + meltdown: Not affected + spec_store_bypass: Vulnerable + spectre_v1: Vulnerable: __user pointer sanitization and usercopy barriers only; no swapgs barriers + spectre_v2: Vulnerable IBPB: disabled STIBP: disabled + srbds: Not affected + tsx_async_abort: Not affected

kernel-scientifichpcc: G-HPLminife: Smallcloverleaf: Lagrangian-Eulerian Hydrodynamicscp2k: Fayalite-FISTnamd: ATPase Simulation - 327,506 Atomsdolfyn: Computational Fluid Dynamicsamg: ffte: N=256, 1D Complex FFT Routinefftw: Stock - 1D FFT Size 32fftw: Stock - 2D FFT Size 32fftw: Stock - 1D FFT Size 4096fftw: Stock - 2D FFT Size 4096fftw: Float + SSE - 1D FFT Size 32fftw: Float + SSE - 2D FFT Size 32fftw: Float + SSE - 1D FFT Size 4096fftw: Float + SSE - 2D FFT Size 4096pennant: sedovbigpennant: leblancbigmrbayes: Primate Phylogeny Analysishmmer: Pfam Database Searchincompact3d: input.i3d 129 Cells Per Directionincompact3d: input.i3d 193 Cells Per Directionmocassin: Dust 2D tau100.0lammps: 20k Atomslammps: Rhodopsin Proteinarrayfire: BLAS CPUmt-dgemm: Sustained Floating-Point Ratehimeno: Poisson Pressure Solvergromacs: MPI CPU - water_GMX50_barekripke: defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt64.005675869.06139.59682.0082.7322921.44626912123336873.3421928946958.18690.46756.94997.31071928344279211345091.9917166.78679154.227159.23038.0383034138.6383102804.6954.593196.1041.3534133826.5082820.5962992764763.579205876.58139.18683.8312.7292221.40626954213337510.4834708896942.38193.36735.24974.81081628364280281349092.2554566.44555152.742157.85537.8776042136.5122072824.6984.608195.3391.3779473867.5330080.6083065359052.695535897.06138.53697.2372.7299621.50727008676739372.6584355205979.58100.16767.44990.610714.727134278221346591.7504065.79164149.756173.57739.3337796139.0822752664.4154.361199.8951.4037603893.1176550.6013060607053.971655892.33139.02689.8322.7296021.46927008026738625.2188591726246.88191.06762.05011.71080927069277031346492.1077066.68654149.733172.17938.6797460140.1364852674.5154.401199.7631.3625343943.7831940.60631049327OpenBenchmarking.org

HPC Challenge

Test / Class: G-HPL

OpenBenchmarking.orgGFLOPS, More Is BetterHPC Challenge 1.5.0Test / Class: G-HPLdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt1428425670SE +/- 0.34, N = 3SE +/- 0.48, N = 3SE +/- 0.49, N = 3SE +/- 0.59, N = 464.0163.5852.7053.971. (CC) gcc options: -lblas -lm -pthread -lmpi -fomit-frame-pointer -funroll-loops2. ATLAS + Open MPI 4.0.3

miniFE

Problem Size: Small

OpenBenchmarking.orgCG Mflops, More Is BetterminiFE 2.2Problem Size: Smalldefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt13002600390052006500SE +/- 7.34, N = 3SE +/- 5.81, N = 3SE +/- 6.03, N = 3SE +/- 5.13, N = 35869.065876.585897.065892.331. (CXX) g++ options: -O3 -fopenmp -pthread -lmpi_cxx -lmpi

CloverLeaf

Lagrangian-Eulerian Hydrodynamics

OpenBenchmarking.orgSeconds, Fewer Is BetterCloverLeafLagrangian-Eulerian Hydrodynamicsdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt306090120150SE +/- 0.08, N = 3SE +/- 0.19, N = 3SE +/- 0.10, N = 3SE +/- 0.01, N = 3139.59139.18138.53139.021. (F9X) gfortran options: -O3 -march=native -funroll-loops -fopenmp

CP2K Molecular Dynamics

Input: Fayalite-FIST

OpenBenchmarking.orgSeconds, Fewer Is BetterCP2K Molecular Dynamics 8.2Input: Fayalite-FISTdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt150300450600750682.01683.83697.24689.83

NAMD

ATPase Simulation - 327,506 Atoms

OpenBenchmarking.orgdays/ns, Fewer Is BetterNAMD 2.14ATPase Simulation - 327,506 Atomsdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt0.61481.22961.84442.45923.074SE +/- 0.00051, N = 3SE +/- 0.00012, N = 3SE +/- 0.00060, N = 3SE +/- 0.00204, N = 32.732292.729222.729962.72960

Dolfyn

Computational Fluid Dynamics

OpenBenchmarking.orgSeconds, Fewer Is BetterDolfyn 0.527Computational Fluid Dynamicsdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt510152025SE +/- 0.15, N = 3SE +/- 0.15, N = 13SE +/- 0.25, N = 4SE +/- 0.21, N = 621.4521.4121.5121.47

Algebraic Multi-Grid Benchmark

OpenBenchmarking.orgFigure Of Merit, More Is BetterAlgebraic Multi-Grid Benchmark 1.2defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt60M120M180M240M300MSE +/- 334412.09, N = 3SE +/- 655205.65, N = 3SE +/- 200238.99, N = 3SE +/- 497247.06, N = 32691212332695421332700867672700802671. (CC) gcc options: -lparcsr_ls -lparcsr_mv -lseq_mv -lIJ_mv -lkrylov -lHYPRE_utilities -lm -fopenmp -pthread -lmpi

FFTE

Test: N=256, 1D Complex FFT Routine

OpenBenchmarking.orgMFLOPS, More Is BetterFFTE 7.0Test: N=256, 1D Complex FFT Routinedefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt8K16K24K32K40KSE +/- 298.77, N = 3SE +/- 304.60, N = 9SE +/- 1.90, N = 3SE +/- 374.35, N = 336873.3437510.4839372.6638625.221. (F9X) gfortran options: -O3 -fomit-frame-pointer -fopenmp

FFTW

Build: Stock - Size: 1D FFT Size 32

OpenBenchmarking.orgMflops, More Is BetterFFTW 3.3.6Build: Stock - Size: 1D FFT Size 32defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt15003000450060007500SE +/- 103.41, N = 15SE +/- 102.34, N = 15SE +/- 322.28, N = 12SE +/- 303.53, N = 156958.16942.35979.56246.81. (CC) gcc options: -pthread -O3 -fomit-frame-pointer -mtune=native -malign-double -fstrict-aliasing -fno-schedule-insns -ffast-math -lm

FFTW

Build: Stock - Size: 2D FFT Size 32

OpenBenchmarking.orgMflops, More Is BetterFFTW 3.3.6Build: Stock - Size: 2D FFT Size 32defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt2K4K6K8K10KSE +/- 109.62, N = 15SE +/- 3.16, N = 3SE +/- 96.85, N = 4SE +/- 16.36, N = 38690.48193.38100.18191.01. (CC) gcc options: -pthread -O3 -fomit-frame-pointer -mtune=native -malign-double -fstrict-aliasing -fno-schedule-insns -ffast-math -lm

FFTW

Build: Stock - Size: 1D FFT Size 4096

OpenBenchmarking.orgMflops, More Is BetterFFTW 3.3.6Build: Stock - Size: 1D FFT Size 4096defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt15003000450060007500SE +/- 8.27, N = 3SE +/- 11.52, N = 3SE +/- 4.37, N = 3SE +/- 8.50, N = 36756.96735.26767.46762.01. (CC) gcc options: -pthread -O3 -fomit-frame-pointer -mtune=native -malign-double -fstrict-aliasing -fno-schedule-insns -ffast-math -lm

FFTW

Build: Stock - Size: 2D FFT Size 4096

OpenBenchmarking.orgMflops, More Is BetterFFTW 3.3.6Build: Stock - Size: 2D FFT Size 4096defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt11002200330044005500SE +/- 16.35, N = 3SE +/- 24.04, N = 3SE +/- 21.71, N = 3SE +/- 16.01, N = 34997.34974.84990.65011.71. (CC) gcc options: -pthread -O3 -fomit-frame-pointer -mtune=native -malign-double -fstrict-aliasing -fno-schedule-insns -ffast-math -lm

FFTW

Build: Float + SSE - Size: 1D FFT Size 32

OpenBenchmarking.orgMflops, More Is BetterFFTW 3.3.6Build: Float + SSE - Size: 1D FFT Size 32defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt2K4K6K8K10KSE +/- 4.58, N = 3SE +/- 14.17, N = 3SE +/- 66.80, N = 13SE +/- 23.03, N = 310719.010816.010714.710809.01. (CC) gcc options: -pthread -O3 -fomit-frame-pointer -mtune=native -malign-double -fstrict-aliasing -fno-schedule-insns -ffast-math -lm

FFTW

Build: Float + SSE - Size: 2D FFT Size 32

OpenBenchmarking.orgMflops, More Is BetterFFTW 3.3.6Build: Float + SSE - Size: 2D FFT Size 32defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt6K12K18K24K30KSE +/- 37.33, N = 3SE +/- 18.48, N = 3SE +/- 494.14, N = 15SE +/- 498.90, N = 15283442836427134270691. (CC) gcc options: -pthread -O3 -fomit-frame-pointer -mtune=native -malign-double -fstrict-aliasing -fno-schedule-insns -ffast-math -lm

FFTW

Build: Float + SSE - Size: 1D FFT Size 4096

OpenBenchmarking.orgMflops, More Is BetterFFTW 3.3.6Build: Float + SSE - Size: 1D FFT Size 4096defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt6K12K18K24K30KSE +/- 70.30, N = 3SE +/- 129.82, N = 3SE +/- 43.59, N = 3SE +/- 305.62, N = 3279212802827822277031. (CC) gcc options: -pthread -O3 -fomit-frame-pointer -mtune=native -malign-double -fstrict-aliasing -fno-schedule-insns -ffast-math -lm

FFTW

Build: Float + SSE - Size: 2D FFT Size 4096

OpenBenchmarking.orgMflops, More Is BetterFFTW 3.3.6Build: Float + SSE - Size: 2D FFT Size 4096defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt3K6K9K12K15KSE +/- 10.93, N = 3SE +/- 42.79, N = 3SE +/- 28.02, N = 3SE +/- 126.98, N = 3134501349013465134641. (CC) gcc options: -pthread -O3 -fomit-frame-pointer -mtune=native -malign-double -fstrict-aliasing -fno-schedule-insns -ffast-math -lm

Pennant

Test: sedovbig

OpenBenchmarking.orgHydro Cycle Time - Seconds, Fewer Is BetterPennant 1.0.1Test: sedovbigdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt20406080100SE +/- 0.40, N = 3SE +/- 0.47, N = 3SE +/- 0.36, N = 3SE +/- 0.37, N = 391.9992.2691.7592.111. (CXX) g++ options: -fopenmp -pthread -lmpi_cxx -lmpi

Pennant

Test: leblancbig

OpenBenchmarking.orgHydro Cycle Time - Seconds, Fewer Is BetterPennant 1.0.1Test: leblancbigdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt1530456075SE +/- 0.36, N = 3SE +/- 0.25, N = 3SE +/- 0.12, N = 3SE +/- 0.37, N = 366.7966.4565.7966.691. (CXX) g++ options: -fopenmp -pthread -lmpi_cxx -lmpi

Timed MrBayes Analysis

Primate Phylogeny Analysis

OpenBenchmarking.orgSeconds, Fewer Is BetterTimed MrBayes Analysis 3.2.7Primate Phylogeny Analysisdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt306090120150SE +/- 0.74, N = 3SE +/- 0.80, N = 3SE +/- 0.27, N = 3SE +/- 0.56, N = 3154.23152.74149.76149.731. (CC) gcc options: -mmmx -msse -msse2 -msse3 -mssse3 -msse4.1 -msse4.2 -msse4a -msha -maes -mavx -mfma -mavx2 -mrdrnd -mbmi -mbmi2 -madx -mabm -O3 -std=c99 -pedantic -lm

Timed HMMer Search

Pfam Database Search

OpenBenchmarking.orgSeconds, Fewer Is BetterTimed HMMer Search 3.3.2Pfam Database Searchdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt4080120160200SE +/- 1.65, N = 12SE +/- 0.45, N = 3SE +/- 0.46, N = 3SE +/- 0.35, N = 3159.23157.86173.58172.181. (CC) gcc options: -O3 -pthread -lhmmer -leasel -lm -lmpi

Xcompact3d Incompact3d

Input: input.i3d 129 Cells Per Direction

OpenBenchmarking.orgSeconds, Fewer Is BetterXcompact3d Incompact3d 2021-03-11Input: input.i3d 129 Cells Per Directiondefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt918273645SE +/- 0.04, N = 3SE +/- 0.05, N = 3SE +/- 0.25, N = 3SE +/- 0.42, N = 338.0437.8839.3338.681. (F9X) gfortran options: -cpp -O2 -funroll-loops -floop-optimize -fcray-pointer -fbacktrace -pthread -lmpi_usempif08 -lmpi_mpifh -lmpi

Xcompact3d Incompact3d

Input: input.i3d 193 Cells Per Direction

OpenBenchmarking.orgSeconds, Fewer Is BetterXcompact3d Incompact3d 2021-03-11Input: input.i3d 193 Cells Per Directiondefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt306090120150SE +/- 1.71, N = 3SE +/- 1.17, N = 3SE +/- 0.06, N = 3SE +/- 0.52, N = 3138.64136.51139.08140.141. (F9X) gfortran options: -cpp -O2 -funroll-loops -floop-optimize -fcray-pointer -fbacktrace -pthread -lmpi_usempif08 -lmpi_mpifh -lmpi

Monte Carlo Simulations of Ionised Nebulae

Input: Dust 2D tau100.0

OpenBenchmarking.orgSeconds, Fewer Is BetterMonte Carlo Simulations of Ionised Nebulae 2019-03-24Input: Dust 2D tau100.0defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt60120180240300SE +/- 1.15, N = 3SE +/- 1.33, N = 3SE +/- 0.33, N = 3SE +/- 0.33, N = 32802822662671. (F9X) gfortran options: -cpp -Jsource/ -ffree-line-length-0 -lm -std=legacy -O3 -O2 -pthread -lmpi_usempif08 -lmpi_mpifh -lmpi

LAMMPS Molecular Dynamics Simulator

Model: 20k Atoms

OpenBenchmarking.orgns/day, More Is BetterLAMMPS Molecular Dynamics Simulator 23Jun2022Model: 20k Atomsdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt1.05712.11423.17134.22845.2855SE +/- 0.043, N = 7SE +/- 0.006, N = 3SE +/- 0.070, N = 9SE +/- 0.011, N = 34.6954.6984.4154.5151. (CXX) g++ options: -O3 -pthread -lm -ldl

LAMMPS Molecular Dynamics Simulator

Model: Rhodopsin Protein

OpenBenchmarking.orgns/day, More Is BetterLAMMPS Molecular Dynamics Simulator 23Jun2022Model: Rhodopsin Proteindefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt1.03682.07363.11044.14725.184SE +/- 0.036, N = 12SE +/- 0.040, N = 3SE +/- 0.053, N = 4SE +/- 0.042, N = 34.5934.6084.3614.4011. (CXX) g++ options: -O3 -pthread -lm -ldl

ArrayFire

Test: BLAS CPU

OpenBenchmarking.orgGFLOPS, More Is BetterArrayFire 3.7Test: BLAS CPUdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt4080120160200SE +/- 1.09, N = 3SE +/- 0.26, N = 3SE +/- 1.91, N = 3SE +/- 2.31, N = 3196.10195.34199.90199.761. (CXX) g++ options: -rdynamic

ACES DGEMM

Sustained Floating-Point Rate

OpenBenchmarking.orgGFLOP/s, More Is BetterACES DGEMM 1.0Sustained Floating-Point Ratedefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt0.31580.63160.94741.26321.579SE +/- 0.012458, N = 3SE +/- 0.019193, N = 3SE +/- 0.006679, N = 3SE +/- 0.003795, N = 31.3534131.3779471.4037601.3625341. (CC) gcc options: -O3 -march=native -fopenmp

Himeno Benchmark

Poisson Pressure Solver

OpenBenchmarking.orgMFLOPS, More Is BetterHimeno Benchmark 3.0Poisson Pressure Solverdefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt8001600240032004000SE +/- 32.49, N = 3SE +/- 26.40, N = 15SE +/- 55.25, N = 3SE +/- 14.00, N = 33826.513867.533893.123943.781. (CC) gcc options: -O3 -mavx2

GROMACS

Implementation: MPI CPU - Input: water_GMX50_bare

OpenBenchmarking.orgNs Per Day, More Is BetterGROMACS 2022.1Implementation: MPI CPU - Input: water_GMX50_baredefaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt0.13680.27360.41040.54720.684SE +/- 0.007, N = 3SE +/- 0.001, N = 3SE +/- 0.000, N = 3SE +/- 0.003, N = 30.5960.6080.6010.6061. (CXX) g++ options: -O3 -pthread

Kripke

OpenBenchmarking.orgThroughput FoM, More Is BetterKripke 1.2.4defaultdefault mitigations=off5.15.30-hdr5.15.30-hdr vol preempt7M14M21M28M35MSE +/- 311858.03, N = 3SE +/- 286459.37, N = 3SE +/- 212260.85, N = 12SE +/- 271455.19, N = 3299276473065359030606070310493271. (CXX) g++ options: -O3 -fopenmp


Phoronix Test Suite v10.8.4