bio1

AMD Ryzen 9 7950X 16-Core testing with a MSI PRO B650-S WIFI (MS-7E26) v1.0 (1.F1 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 2408078-NE-2408065NE07
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Bioinformatics 5 Tests
C/C++ Compiler Tests 4 Tests
CPU Massive 4 Tests
HPC - High Performance Computing 5 Tests
MPI Benchmarks 2 Tests
OpenMPI Tests 3 Tests
Scientific Computing 5 Tests

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bio
August 07
  50 Minutes
bio2
August 07
  49 Minutes
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bio

Processor: AMD Ryzen 9 7950X 16-Core @ 5.88GHz (16 Cores / 32 Threads), Motherboard: MSI PRO B650-S WIFI (MS-7E26) v1.0 (1.80 BIOS), Chipset: AMD Device 14d8, Memory: 2 x 32GB DDR5-4800MT/s CMK64GX5M2B5200C40, Disk: Western Digital WD_BLACK SN850X HS 2000GB, Graphics: MSI NVIDIA GeForce RTX 4070 Ti SUPER 16GB, Audio: NVIDIA AD102 HD Audio, Network: Realtek RTL8125 2.5GbE + MEDIATEK MT7922 802.11ax PCI

OS: Arch Linux, Kernel: 6.10.3-arch1-2 (x86_64), Desktop: KDE Plasma 6.1.3, Display Server: X Server 1.21.1.13 + Wayland, Display Driver: NVIDIA 555.58.02, OpenGL: 4.6 Mesa 24.1.5-arch1.1 (LLVM 18.1.8 DRM 3.57), OpenCL: OpenCL 3.0 CUDA 12.5.85, Compiler: GCC 14.2.1 20240805, File-System: ext4, Screen Resolution: 1920x1080

Kernel Notes: Transparent Huge Pages: always
Compiler Notes: --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
Processor Notes: Scaling Governor: amd-pstate-epp powersave (EPP: performance) - CPU Microcode: 0xa601206
Python Notes: Python 3.12.4
Security Notes: 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

bio2

Changed Motherboard to MSI PRO B650-S WIFI (MS-7E26) v1.0 (1.F1 BIOS).

Changed Disk to Western Digital WD_BLACK SN850X HS 2000GB + 124GB DataTraveler 3.0.

bio1ProcessorMotherboardChipsetMemoryDiskGraphicsAudioNetworkOSKernelDesktopDisplay ServerDisplay DriverOpenGLOpenCLCompilerFile-SystemScreen Resolutionbiobio2AMD 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 20240805ext41920x1080MSI PRO B650-S WIFI (MS-7E26) v1.0 (1.F1 BIOS)Western Digital WD_BLACK SN850X HS 2000GB + 124GB DataTraveler 3.0OpenBenchmarking.orgKernel Details- Transparent Huge Pages: alwaysCompiler Details- --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 Processor Details- Scaling Governor: amd-pstate-epp powersave (EPP: performance) - CPU Microcode: 0xa601206Python Details- Python 3.12.4Security Details- 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

bio vs. bio2 ComparisonPhoronix Test SuiteBaseline+1.3%+1.3%+2.6%+2.6%+3.9%+3.9%5%4.7%3.1%2.2%simple-H2OH4_aeO_ae_pyscf_UHFLiH_ae_MSDQMCPACKQMCPACKQMCPACKQMCPACKbiobio2

bio1qmcpack: simple-H2Oqmcpack: H4_aeqmcpack: O_ae_pyscf_UHFqmcpack: LiH_ae_MSDmafft: Multiple Sequence Alignment - LSU RNAhmmer: Pfam Database Searchqmcpack: FeCO6_b3lyp_gmsqmcpack: Li2_STO_aemrbayes: Primate Phylogeny Analysishimeno: biobio218.24110.243113.48171.886.24974.298387.94116.4469.51917.3799.781110.04168.206.14773.101385.60115.7669.238OpenBenchmarking.org

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: simple-H2Obiobio248121620SE +/- 0.23, N = 3SE +/- 0.01, N = 318.2417.381. (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: H4_aebiobio23691215SE +/- 0.113, N = 5SE +/- 0.103, N = 310.2439.7811. (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_UHFbiobio2306090120150SE +/- 0.46, N = 3SE +/- 0.81, N = 3113.48110.041. (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_MSDbiobio24080120160200SE +/- 1.59, N = 3SE +/- 0.21, N = 3171.88168.201. (CXX) g++ options: -fopenmp -foffload=disable -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -ffast-math -march=native -O3 -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 RNAbiobio2246810SE +/- 0.024, N = 3SE +/- 0.046, N = 36.2496.1471. (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 Searchbiobio21632486480SE +/- 0.02, N = 3SE +/- 0.06, N = 374.3073.101. (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 3.17.1Input: FeCO6_b3lyp_gmsbiobio280160240320400SE +/- 0.72, N = 3SE +/- 0.19, N = 3387.94385.601. (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_aebiobio2306090120150SE +/- 1.16, N = 3SE +/- 0.40, N = 3116.44115.761. (CXX) g++ options: -fopenmp -foffload=disable -finline-limit=1000 -fstrict-aliasing -funroll-all-loops -ffast-math -march=native -O3 -lm

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 Analysisbiobio21530456075SE +/- 0.57, N = 3SE +/- 0.32, N = 369.5269.241. (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

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

bio2: The test quit with a non-zero exit status. E: himeno: line 2: ./himenobmtxpa: No such file or directory

bio

Processor: AMD Ryzen 9 7950X 16-Core @ 5.88GHz (16 Cores / 32 Threads), Motherboard: MSI PRO B650-S WIFI (MS-7E26) v1.0 (1.80 BIOS), Chipset: AMD Device 14d8, Memory: 2 x 32GB DDR5-4800MT/s CMK64GX5M2B5200C40, Disk: Western Digital WD_BLACK SN850X HS 2000GB, Graphics: MSI NVIDIA GeForce RTX 4070 Ti SUPER 16GB, Audio: NVIDIA AD102 HD Audio, Network: Realtek RTL8125 2.5GbE + MEDIATEK MT7922 802.11ax PCI

OS: Arch Linux, Kernel: 6.10.3-arch1-2 (x86_64), Desktop: KDE Plasma 6.1.3, Display Server: X Server 1.21.1.13 + Wayland, Display Driver: NVIDIA 555.58.02, OpenGL: 4.6 Mesa 24.1.5-arch1.1 (LLVM 18.1.8 DRM 3.57), OpenCL: OpenCL 3.0 CUDA 12.5.85, Compiler: GCC 14.2.1 20240805, File-System: ext4, Screen Resolution: 1920x1080

Kernel Notes: Transparent Huge Pages: always
Compiler Notes: --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
Processor Notes: Scaling Governor: amd-pstate-epp powersave (EPP: performance) - CPU Microcode: 0xa601206
Python Notes: Python 3.12.4
Security Notes: 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

Testing initiated at 7 August 2024 03:03 by user aidan.

bio2

Processor: AMD Ryzen 9 7950X 16-Core @ 5.88GHz (16 Cores / 32 Threads), Motherboard: MSI PRO B650-S WIFI (MS-7E26) v1.0 (1.F1 BIOS), Chipset: AMD Device 14d8, Memory: 2 x 32GB DDR5-4800MT/s CMK64GX5M2B5200C40, Disk: Western Digital WD_BLACK SN850X HS 2000GB + 124GB DataTraveler 3.0, Graphics: MSI NVIDIA GeForce RTX 4070 Ti SUPER 16GB, Audio: NVIDIA AD102 HD Audio, Network: Realtek RTL8125 2.5GbE + MEDIATEK MT7922 802.11ax PCI

OS: Arch Linux, Kernel: 6.10.3-arch1-2 (x86_64), Desktop: KDE Plasma 6.1.3, Display Server: X Server 1.21.1.13 + Wayland, Display Driver: NVIDIA 555.58.02, OpenGL: 4.6 Mesa 24.1.5-arch1.1 (LLVM 18.1.8 DRM 3.57), OpenCL: OpenCL 3.0 CUDA 12.5.85, Compiler: GCC 14.2.1 20240805, File-System: ext4, Screen Resolution: 1920x1080

Kernel Notes: Transparent Huge Pages: always
Compiler Notes: --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
Processor Notes: Scaling Governor: amd-pstate-epp powersave (EPP: performance) - CPU Microcode: 0xa601206
Python Notes: Python 3.12.4
Security Notes: 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

Testing initiated at 7 August 2024 05:44 by user aidan.