bioinfo-IFB-oscar-ubuntu-8

KVM testing on Ubuntu 22.04 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 2211082-DSAL-BIOINFO55
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Result
Identifier
Performance Per
Dollar
Date
Run
  Test
  Duration
IFB-oscar-ubuntu-8
November 03 2022
  33 Minutes
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bioinfo-IFB-oscar-ubuntu-8OpenBenchmarking.orgPhoronix Test Suite8 x Intel Xeon (Skylake IBRS) (8 Cores)RDO OpenStack Compute (1.14.0-1.el8 BIOS)Intel 440FX 82441FX PMC32GB124GBCirrus Logic GD 5446Red Hat Virtio deviceUbuntu 22.045.15.0-46-generic (x86_64)1.2.204GCC 11.3.0ext4KVMProcessorMotherboardChipsetMemoryDiskGraphicsNetworkOSKernelVulkanCompilerFile-SystemSystem LayerBioinfo-IFB-oscar-ubuntu-8 BenchmarksSystem Logs- Transparent Huge Pages: madvise- --build=x86_64-linux-gnu --disable-vtable-verify --disable-werror --enable-bootstrap --enable-cet --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++,m2 --enable-libphobos-checking=release --enable-libstdcxx-debug --enable-libstdcxx-time=yes --enable-link-serialization=2 --enable-multiarch --enable-multilib --enable-nls --enable-objc-gc=auto --enable-offload-targets=nvptx-none=/build/gcc-11-xKiWfi/gcc-11-11.3.0/debian/tmp-nvptx/usr,amdgcn-amdhsa=/build/gcc-11-xKiWfi/gcc-11-11.3.0/debian/tmp-gcn/usr --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-build-config=bootstrap-lto-lean --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 - CPU Microcode: 0x1- Python 2.7.18 + Python 3.10.6- itlb_multihit: Not affected + l1tf: Mitigation of PTE Inversion; VMX: flush not necessary SMT disabled + mds: Mitigation of Clear buffers; SMT Host state unknown + meltdown: Mitigation of PTI + mmio_stale_data: Vulnerable: Clear buffers attempted no microcode; SMT Host state unknown + retbleed: Mitigation of IBRS + 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 IBRS IBPB: conditional RSB filling + srbds: Not affected + tsx_async_abort: Mitigation of Clear buffers; SMT Host state unknown

bioinfo-IFB-oscar-ubuntu-8himeno: Poisson Pressure Solvermafft: Multiple Sequence Alignment - LSU RNAhmmer: Pfam Database Searchqmcpack: simple-H2Omrbayes: Primate Phylogeny AnalysisIFB-oscar-ubuntu-82489.29093116.653188.90066.815290.342OpenBenchmarking.org

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 SolverIFB-oscar-ubuntu-85001000150020002500SE +/- 33.17, N = 32489.291. (CC) gcc options: -O3 -mavx2

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 RNAIFB-oscar-ubuntu-848121620SE +/- 0.13, N = 916.651. (CC) gcc options: -std=c99 -O3 -lm -lpthread

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 3.3.2Pfam Database SearchIFB-oscar-ubuntu-84080120160200SE +/- 0.34, N = 3188.901. (CC) gcc options: -O3 -pthread -lhmmer -leasel -lm -lmpi

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. QMCPACK is an open-source production level many-body ab initio Quantum Monte Carlo code for computing the electronic structure of atoms, molecules, and solids. QMCPACK is supported by the U.S. Department of Energy. Learn more via the OpenBenchmarking.org test page.

OpenBenchmarking.orgTotal Execution Time - Seconds, Fewer Is BetterQMCPACK 3.13Input: simple-H2OIFB-oscar-ubuntu-81530456075SE +/- 0.28, N = 366.821. (CXX) g++ options: -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -ffast-math -march=native -O3 -lm -ldl

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 AnalysisIFB-oscar-ubuntu-860120180240300SE +/- 0.04, N = 3290.341. (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