bio_c2

KVM testing 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 2106220-IB-BIOC2003373
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Result
Identifier
Performance Per
Dollar
Date
Run
  Test
  Duration
Intel Xeon
June 22 2021
  22 Minutes
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Intel Xeon

Processor: Intel Xeon (4 Cores / 8 Threads), Motherboard: Google Compute Engine c2-standard-8, Chipset: Intel 440FX 82441FX PMC, Memory: 32GB, Disk: 140GB PersistentDisk, Network: Red Hat Virtio device

OS: Ubuntu 20.04, Kernel: 5.8.0-1032-gcp (x86_64), Compiler: GCC 9.3.0, File-System: ext4, System Layer: KVM

Kernel Notes: Transparent Huge Pages: madvise
Compiler Notes: --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
Processor Notes: CPU Microcode: 0x1
Security Notes: itlb_multihit: Not affected + l1tf: Not affected + mds: Mitigation of Clear buffers; SMT Host state unknown + 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 Enhanced IBRS IBPB: conditional RSB filling + srbds: Not affected + tsx_async_abort: Mitigation of Clear buffers; SMT Host state unknown

bio_c2OpenBenchmarking.orgPhoronix Test SuiteIntel Xeon (4 Cores / 8 Threads)Google Compute Engine c2-standard-8Intel 440FX 82441FX PMC32GB140GB PersistentDiskRed Hat Virtio deviceUbuntu 20.045.8.0-1032-gcp (x86_64)GCC 9.3.0ext4KVMProcessorMotherboardChipsetMemoryDiskNetworkOSKernelCompilerFile-SystemSystem LayerBio_c2 BenchmarksSystem Logs- Transparent Huge Pages: madvise- --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 - CPU Microcode: 0x1- itlb_multihit: Not affected + l1tf: Not affected + mds: Mitigation of Clear buffers; SMT Host state unknown + 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 Enhanced IBRS IBPB: conditional RSB filling + srbds: Not affected + tsx_async_abort: Mitigation of Clear buffers; SMT Host state unknown

bio_c2mrbayes: Primate Phylogeny Analysisqmcpack: simple-H2Ohmmer: Pfam Database Searchmafft: Multiple Sequence Alignment - LSU RNAhimeno: Poisson Pressure SolverIntel Xeon177.51538.116144.84613.1953231.746809OpenBenchmarking.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 AnalysisIntel Xeon4080120160200SE +/- 0.04, N = 3177.521. (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

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 3.11Input: simple-H2OIntel Xeon918273645SE +/- 0.11, N = 338.121. (CXX) g++ options: -fopenmp -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -march=native -O3 -fomit-frame-pointer -ffast-math -pthread -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 3.3.2Pfam Database SearchIntel Xeon306090120150SE +/- 0.07, N = 3144.851. (CC) gcc options: -O3 -pthread -lhmmer -leasel -lm -lmpi

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 RNAIntel Xeon3691215SE +/- 0.02, N = 313.201. (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 SolverIntel Xeon7001400210028003500SE +/- 2.55, N = 33231.751. (CC) gcc options: -O3 -mavx2

Intel Xeon

Processor: Intel Xeon (4 Cores / 8 Threads), Motherboard: Google Compute Engine c2-standard-8, Chipset: Intel 440FX 82441FX PMC, Memory: 32GB, Disk: 140GB PersistentDisk, Network: Red Hat Virtio device

OS: Ubuntu 20.04, Kernel: 5.8.0-1032-gcp (x86_64), Compiler: GCC 9.3.0, File-System: ext4, System Layer: KVM

Kernel Notes: Transparent Huge Pages: madvise
Compiler Notes: --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
Processor Notes: CPU Microcode: 0x1
Security Notes: itlb_multihit: Not affected + l1tf: Not affected + mds: Mitigation of Clear buffers; SMT Host state unknown + 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 Enhanced IBRS IBPB: conditional RSB filling + srbds: Not affected + tsx_async_abort: Mitigation of Clear buffers; SMT Host state unknown

Testing initiated at 22 June 2021 14:04 by user joba.