bio1

AMD Ryzen 9 7950X 16-Core testing with a MSI PRO B650-S WIFI (MS-7E26) v1.0 (1.80 BIOS) and MSI NVIDIA GeForce RTX 4070 Ti SUPER 16GB on Arch Linux 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 2408065-NE-BIO11792003
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Result
Identifier
Performance Per
Dollar
Date
Run
  Test
  Duration
bio
August 07
  50 Minutes
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bio1OpenBenchmarking.orgPhoronix Test SuiteAMD Ryzen 9 7950X 16-Core @ 5.88GHz (16 Cores / 32 Threads)MSI PRO B650-S WIFI (MS-7E26) v1.0 (1.80 BIOS)AMD Device 14d82 x 32GB DDR5-4800MT/s CMK64GX5M2B5200C40Western Digital WD_BLACK SN850X HS 2000GBMSI NVIDIA GeForce RTX 4070 Ti SUPER 16GBNVIDIA AD102 HD AudioRealtek RTL8125 2.5GbE + MEDIATEK MT7922 802.11ax PCIArch Linux6.10.3-arch1-2 (x86_64)KDE Plasma 6.1.3X Server 1.21.1.13 + WaylandNVIDIA 555.58.024.6 Mesa 24.1.5-arch1.1 (LLVM 18.1.8 DRM 3.57)OpenCL 3.0 CUDA 12.5.85GCC 14.2.1 20240805ext41920x1080ProcessorMotherboardChipsetMemoryDiskGraphicsAudioNetworkOSKernelDesktopDisplay ServerDisplay DriverOpenGLOpenCLCompilerFile-SystemScreen ResolutionBio1 BenchmarksSystem Logs- Transparent Huge Pages: always- --disable-libssp --disable-libstdcxx-pch --disable-werror --enable-__cxa_atexit --enable-bootstrap --enable-cet=auto --enable-checking=release --enable-clocale=gnu --enable-default-pie --enable-default-ssp --enable-gnu-indirect-function --enable-gnu-unique-object --enable-languages=ada,c,c++,d,fortran,go,lto,m2,objc,obj-c++,rust --enable-libstdcxx-backtrace --enable-link-serialization=1 --enable-lto --enable-multilib --enable-plugin --enable-shared --enable-threads=posix --mandir=/usr/share/man --with-build-config=bootstrap-lto --with-linker-hash-style=gnu - Scaling Governor: amd-pstate-epp powersave (EPP: performance) - CPU Microcode: 0xa601206 - Python 3.12.4- gather_data_sampling: Not affected + itlb_multihit: Not affected + l1tf: Not affected + mds: Not affected + meltdown: Not affected + mmio_stale_data: Not affected + reg_file_data_sampling: Not affected + retbleed: Not affected + spec_rstack_overflow: Mitigation of Safe RET + spec_store_bypass: Mitigation of SSB disabled via prctl + spectre_v1: Mitigation of usercopy/swapgs barriers and __user pointer sanitization + spectre_v2: Mitigation of Enhanced / Automatic IBRS; IBPB: conditional; STIBP: always-on; RSB filling; PBRSB-eIBRS: Not affected; BHI: Not affected + srbds: Not affected + tsx_async_abort: Not affected

bio1mrbayes: Primate Phylogeny Analysisqmcpack: H4_aeqmcpack: Li2_STO_aeqmcpack: LiH_ae_MSDqmcpack: simple-H2Oqmcpack: O_ae_pyscf_UHFqmcpack: FeCO6_b3lyp_gmshmmer: Pfam Database Searchmafft: Multiple Sequence Alignment - LSU RNAhimeno: bio69.51910.243116.44171.8818.241113.48387.9474.2986.249OpenBenchmarking.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 Analysisbio1530456075SE +/- 0.57, N = 369.521. (CC) gcc options: -mmmx -msse -msse2 -msse3 -mssse3 -msse4.1 -msse4.2 -msse4a -msha -maes -mavx -mfma -mavx2 -mavx512f -mavx512cd -mavx512vl -mavx512bw -mavx512dq -mavx512ifma -mavx512vbmi -mrdrnd -mbmi -mbmi2 -madx -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. 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 3.17.1Input: H4_aebio3691215SE +/- 0.11, N = 510.241. (CXX) g++ options: -fopenmp -foffload=disable -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -ffast-math -march=native -O3 -lm

OpenBenchmarking.orgTotal Execution Time - Seconds, Fewer Is BetterQMCPACK 3.17.1Input: Li2_STO_aebio306090120150SE +/- 1.16, N = 3116.441. (CXX) g++ options: -fopenmp -foffload=disable -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -ffast-math -march=native -O3 -lm

OpenBenchmarking.orgTotal Execution Time - Seconds, Fewer Is BetterQMCPACK 3.17.1Input: LiH_ae_MSDbio4080120160200SE +/- 1.59, N = 3171.881. (CXX) g++ options: -fopenmp -foffload=disable -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -ffast-math -march=native -O3 -lm

OpenBenchmarking.orgTotal Execution Time - Seconds, Fewer Is BetterQMCPACK 3.17.1Input: simple-H2Obio48121620SE +/- 0.23, N = 318.241. (CXX) g++ options: -fopenmp -foffload=disable -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -ffast-math -march=native -O3 -lm

OpenBenchmarking.orgTotal Execution Time - Seconds, Fewer Is BetterQMCPACK 3.17.1Input: O_ae_pyscf_UHFbio306090120150SE +/- 0.46, N = 3113.481. (CXX) g++ options: -fopenmp -foffload=disable -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -ffast-math -march=native -O3 -lm

OpenBenchmarking.orgTotal Execution Time - Seconds, Fewer Is BetterQMCPACK 3.17.1Input: FeCO6_b3lyp_gmsbio80160240320400SE +/- 0.72, N = 3387.941. (CXX) g++ options: -fopenmp -foffload=disable -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -ffast-math -march=native -O3 -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 Searchbio1632486480SE +/- 0.02, N = 374.301. (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 RNAbio246810SE +/- 0.024, N = 36.2491. (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.

bio: The test quit with a non-zero exit status. E: himeno: line 2: ./himenobmtxpa: No such file or directory