bio-test

Intel Core i9-9980XE testing with a HP 81C5 (P62 v01.81 BIOS) and MSI NVIDIA GeForce RTX 2080 8GB on Ubuntu 20.04 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 2010283-FI-BIOTEST0492
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biotest1
October 28 2020
  57 Minutes
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bio-testOpenBenchmarking.orgPhoronix Test SuiteIntel Core i9-9980XE @ 4.40GHz (18 Cores / 36 Threads)HP 81C5 (P62 v01.81 BIOS)Intel Sky Lake-E DMI3 Registers126GB1024GB SAMSUNG MZVLB1T0HALR-000H2 + 2 x 4001GB Seagate ST4000NM0165MSI NVIDIA GeForce RTX 2080 8GB (1515/7000MHz)Realtek ALC221HP Z27n G2Intel I219-VUbuntu 20.045.4.0-48-generic (x86_64)GNOME Shell 3.36.4X Server 1.20.8NVIDIA 435.214.6.01.1.109GCC 9.3.0ext41440x2560ProcessorMotherboardChipsetMemoryDiskGraphicsAudioMonitorNetworkOSKernelDesktopDisplay ServerDisplay DriverOpenGLVulkanCompilerFile-SystemScreen ResolutionBio-test BenchmarksSystem Logs- --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-HskZEa/gcc-9-9.3.0/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 - Scaling Governor: intel_pstate powersave - CPU Microcode: 0x2006906- itlb_multihit: KVM: Vulnerable + l1tf: Mitigation of PTE Inversion + mds: Mitigation of Clear buffers; SMT vulnerable + meltdown: Mitigation of PTI + 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 generic retpoline IBPB: conditional IBRS_FW STIBP: conditional RSB filling + srbds: Not affected + tsx_async_abort: Mitigation of Clear buffers; SMT vulnerable

bio-testmrbayes: Primate Phylogeny Analysisqmcpack: hmmer: Pfam Database Searchmafft: Multiple Sequence Alignment - LSU RNAhimeno: Poisson Pressure Solverbiotest1112.0572412.5160.2439.8713875.603208OpenBenchmarking.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 Analysisbiotest1306090120150SE +/- 0.07, N = 3112.061. (CC) gcc options: -mmmx -msse -msse2 -msse3 -mssse3 -msse4.1 -msse4.2 -maes -mavx -mfma -mavx2 -mavx512f -mavx512cd -mavx512vl -mavx512bw -mavx512dq -mrdrnd -mbmi -mbmi2 -madx -mmpx -mabm -O3 -std=c99 -pedantic -lm -lreadline

QMCPACK

QMCPACK is a modern high-performance open-source Quantum Monte Carlo (QMC) simulation code making use of MPI for this benchmark of the H20 example code. Learn more via the OpenBenchmarking.org test page.

OpenBenchmarking.orgTotal Execution Time - Seconds, Fewer Is BetterQMCPACK 3.8biotest150010001500200025002412.51. (CXX) g++ options: -fopenmp -fomit-frame-pointer -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -march=native -O3 -ffast-math -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 Searchbiotest14080120160200SE +/- 0.41, N = 3160.241. (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 RNAbiotest13691215SE +/- 0.029, N = 39.8711. (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 Solverbiotest18001600240032004000SE +/- 6.29, N = 33875.601. (CC) gcc options: -O3 -mavx2