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.

Compare your own system(s) to this result file with the Phoronix Test Suite by running the command: phoronix-test-suite benchmark 2104104-HA-BIOINFORM95
Jump To Table - Results

Statistics

Remove Outliers Before Calculating Averages

Graph Settings

Prefer Vertical Bar Graphs

Table

Show Detailed System Result Table
Only show results matching title/arguments (delimit multiple options with a comma):


bioinformatics_testOpenBenchmarking.orgPhoronix Test Suite 10.4.0m1AMD 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 11.2ext41280x1024ProcessorMotherboardChipsetMemoryDiskGraphicsAudioMonitorNetworkOSKernelDesktopDisplay ServerDisplay DriverOpenGLVulkanCompilerFile-SystemScreen ResolutionBioinformatics_test BenchmarksSystem Logs- 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_testmrbayes: Primate Phylogeny Analysishmmer: Pfam Database Searchmafft: Multiple Sequence Alignment - LSU RNAhimeno: Poisson Pressure SolverAMD Ryzen Threadripper 3970X 32-Core95.825116.9329.0674788.848990OpenBenchmarking.org

Timed MrBayes Analysis

This test performs a bayesian analysis of a set of primate genome sequences in order to estimate their phylogeny. Learn more via the OpenBenchmarking.org test page.

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

This test searches through the Pfam database of profile hidden markov models. The search finds the domain structure of Drosophila Sevenless protein. Learn more via the OpenBenchmarking.org test page.

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

This test performs an alignment of 100 pyruvate decarboxylase sequences. Learn more via the OpenBenchmarking.org test page.

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

Himeno Benchmark

The Himeno benchmark is a linear solver of pressure Poisson using a point-Jacobi method. Learn more via the OpenBenchmarking.org test page.

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