bioinformatics_test

AMD Ryzen Threadripper 3970X 32-Core testing with a ASRock TRX40 Creator (P1.70 BIOS) and Gigabyte NVIDIA GeForce RTX 2080 Ti 11GB on Debian 10 via the Phoronix Test Suite.

HTML result view exported from: https://openbenchmarking.org/result/2104104-HA-BIOINFORM95&gru.

bioinformatics_testProcessorMotherboardChipsetMemoryDiskGraphicsAudioMonitorNetworkOSKernelDesktopDisplay ServerDisplay DriverOpenGLVulkanCompilerFile-SystemScreen ResolutionAMD Ryzen Threadripper 3970X 32-CoreAMD Ryzen Threadripper 3970X 32-Core @ 3.70GHz (32 Cores / 64 Threads)ASRock TRX40 Creator (P1.70 BIOS)AMD Starship/Matisse2 x 32 GB DDR4-3200MT/s TEAMGROUP-UD4-3200Samsung SSD 970 EVO 500GB + 2000GB Western Digital WD20EFAX-68FGigabyte NVIDIA GeForce RTX 2080 Ti 11GBNVIDIA TU102 HD AudioDELL E176FPAquantia AQC107 NBase-T/IEEE + Realtek Device 8125 + Intel Device 2723Debian 104.19.0-16-amd64 (x86_64)GNOME Shell 3.30.2X Server 1.20.4NVIDIA 460.674.6.01.2.155GCC 8.3.0 + CUDA 11.2ext41280x1024OpenBenchmarking.org- Transparent Huge Pages: always- --build=x86_64-linux-gnu --disable-vtable-verify --disable-werror --enable-bootstrap --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++ --enable-libmpx --enable-libstdcxx-debug --enable-libstdcxx-time=yes --enable-multiarch --enable-multilib --enable-nls --enable-objc-gc=auto --enable-offload-targets=nvptx-none --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 --with-tune=generic --without-cuda-driver -v - Scaling Governor: acpi-cpufreq ondemand (Boost: Enabled) - CPU Microcode: 0x8301039- itlb_multihit: Not affected + l1tf: Not affected + mds: Not affected + meltdown: Not affected + 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 Full AMD retpoline IBPB: conditional STIBP: conditional RSB filling + srbds: Not affected + tsx_async_abort: Not affected

bioinformatics_testhimeno: Poisson Pressure Solvermrbayes: Primate Phylogeny Analysishmmer: Pfam Database Searchmafft: Multiple Sequence Alignment - LSU RNAAMD Ryzen Threadripper 3970X 32-Core4788.84899095.825116.9329.067OpenBenchmarking.org

Himeno Benchmark

Poisson Pressure Solver

OpenBenchmarking.orgMFLOPS, More Is BetterHimeno Benchmark 3.0Poisson Pressure SolverAMD Ryzen Threadripper 3970X 32-Core10002000300040005000SE +/- 56.52, N = 44788.851. (CC) gcc options: -O3 -mavx2

Timed MrBayes Analysis

Primate Phylogeny Analysis

OpenBenchmarking.orgSeconds, Fewer Is BetterTimed MrBayes Analysis 3.2.7Primate Phylogeny AnalysisAMD Ryzen Threadripper 3970X 32-Core20406080100SE +/- 0.30, N = 395.831. (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 3.3.1Pfam Database SearchAMD Ryzen Threadripper 3970X 32-Core306090120150SE +/- 0.18, N = 3116.931. (CC) gcc options: -O3 -pthread -lhmmer -leasel -lm

Timed MAFFT Alignment

Multiple Sequence Alignment - LSU RNA

OpenBenchmarking.orgSeconds, Fewer Is BetterTimed MAFFT Alignment 7.471Multiple Sequence Alignment - LSU RNAAMD Ryzen Threadripper 3970X 32-Core3691215SE +/- 0.012, N = 39.0671. (CC) gcc options: -std=c99 -O3 -lm -lpthread

Phoronix Test Suite v10.8.4