bioinf3

AMD Ryzen 9 3900X 12-Core testing with a ASUS TUF GAMING X570-PRO (WI-FI) (3001 BIOS) and Gigabyte NVIDIA GeForce RTX 2080 SUPER 8GB on Fedora Linux 35 via the Phoronix Test Suite.

HTML result view exported from: https://openbenchmarking.org/result/2203225-NE-BIOINF31117.

bioinf3ProcessorMotherboardChipsetMemoryDiskGraphicsAudioMonitorNetworkOSKernelDesktopDisplay ServerDisplay DriverOpenGLCompilerFile-SystemScreen ResolutionAMD Ryzen 9 3900X 12-CoreAMD Ryzen 9 3900X 12-Core @ 3.80GHz (12 Cores / 24 Threads)ASUS TUF GAMING X570-PRO (WI-FI) (3001 BIOS)AMD Starship/Matisse64GB2048GB INTEL SSDPEKNW020T8 + 1000GB Samsung SSD 970 EVO Plus 1TB + 240GB KINGSTON SA400S3 + 500GB Samsung SSD 850Gigabyte NVIDIA GeForce RTX 2080 SUPER 8GBNVIDIA TU104 HD AudioAcer G277HL + PL3266QIntel I225-V + Intel Wi-Fi 6 AX200Fedora Linux 355.16.15-201.fc35.x86_64 (x86_64)GNOME Shell 41.4X Server 1.20.14NVIDIA 510.47.034.6.0Clang 13.0.0 + LLVM 13.0.0btrfs1024x768OpenBenchmarking.org- Transparent Huge Pages: madvise- DEBUGINFOD_URLS=https://debuginfod.fedoraproject.org/- --build=x86_64-redhat-linux --disable-libunwind-exceptions --enable-__cxa_atexit --enable-bootstrap --enable-cet --enable-checking=release --enable-gnu-indirect-function --enable-gnu-unique-object --enable-initfini-array --enable-languages=c,c++,fortran,objc,obj-c++,ada,go,d,lto --enable-link-serialization=1 --enable-multilib --enable-offload-targets=nvptx-none --enable-plugin --enable-shared --enable-threads=posix --mandir=/usr/share/man --with-arch_32=i686 --with-build-config=bootstrap-lto --with-gcc-major-version-only --with-linker-hash-style=gnu --with-tune=generic --without-cuda-driver - Scaling Governor: acpi-cpufreq schedutil (Boost: Enabled) - CPU Microcode: 0x8701021- Python 3.10.2- SELinux + itlb_multihit: Not affected + l1tf: Not affected + mds: Not affected + meltdown: Not affected + spec_store_bypass: Mitigation of SSB disabled via prctl + spectre_v1: Mitigation of usercopy/swapgs barriers and __user pointer sanitization + spectre_v2: Mitigation of Retpolines IBPB: conditional STIBP: conditional RSB filling + srbds: Not affected + tsx_async_abort: Not affected

bioinf3mrbayes: Primate Phylogeny Analysisqmcpack: simple-H2Ohmmer: Pfam Database Searchmafft: Multiple Sequence Alignment - LSU RNAhimeno: Poisson Pressure SolverAMD Ryzen 9 3900X 12-Core101.02427.085111.01610.0374764.025032OpenBenchmarking.org

Timed MrBayes Analysis

Primate Phylogeny Analysis

OpenBenchmarking.orgSeconds, Fewer Is BetterTimed MrBayes Analysis 3.2.7Primate Phylogeny AnalysisAMD Ryzen 9 3900X 12-Core20406080100SE +/- 0.11, N = 3101.021. (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

QMCPACK

Input: simple-H2O

OpenBenchmarking.orgTotal Execution Time - Seconds, Fewer Is BetterQMCPACK 3.13Input: simple-H2OAMD Ryzen 9 3900X 12-Core612182430SE +/- 0.23, N = 827.091. (CXX) g++ options: -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -ffast-math -march=native -O3 -lm -ldl

Timed HMMer Search

Pfam Database Search

OpenBenchmarking.orgSeconds, Fewer Is BetterTimed HMMer Search 3.3.2Pfam Database SearchAMD Ryzen 9 3900X 12-Core20406080100SE +/- 0.27, N = 3111.021. (CC) gcc options: -O3 -pthread -lhmmer -leasel -lm -lmpi

Timed MAFFT Alignment

Multiple Sequence Alignment - LSU RNA

OpenBenchmarking.orgSeconds, Fewer Is BetterTimed MAFFT Alignment 7.471Multiple Sequence Alignment - LSU RNAAMD Ryzen 9 3900X 12-Core3691215SE +/- 0.06, N = 310.041. (CC) gcc options: -std=c99 -O3 -lm -lpthread

Himeno Benchmark

Poisson Pressure Solver

OpenBenchmarking.orgMFLOPS, More Is BetterHimeno Benchmark 3.0Poisson Pressure SolverAMD Ryzen 9 3900X 12-Core10002000300040005000SE +/- 66.21, N = 34764.031. (CC) gcc options: -O3 -mavx2

Phoronix Test Suite v10.8.4