Timed MrBayes Analysis

This test performs a bayesian analysis of a set of primate genome sequences in order to estimate their phylogeny.

To run this test with the Phoronix Test Suite, the basic command is: phoronix-test-suite benchmark mrbayes.

Project Site

github.com

Test Created

6 December 2010

Last Updated

11 October 2019

Test Maintainer

Andrew Schofield

Test Type

Processor

Average Install Time

1 Minute, 52 Seconds

Average Run Time

12 Minutes, 41 Seconds

Test Dependencies

C/C++ Compiler Toolchain + OpenMPI

Accolades

150k+ Downloads

Supported Platforms

* Data based on those opting to upload their test results to OpenBenchmarking.org and users enabling the opt-in anonymous statistics reporting while running benchmarks from an Internet-connected platform.
Data current as of Sat, 10 Apr 2021 06:08:42 GMT.

Revision History

pts/mrbayes-1.4.0 [View Source] Fri, 11 Oct 2019 11:45:36 GMT
Update against upstream, add Windows support.

pts/mrbayes-1.3.2 [View Source] Sun, 26 Aug 2018 17:06:48 GMT
Update download links.

pts/mrbayes-1.3.1 [View Source] Wed, 07 Feb 2018 13:41:43 GMT
Use built-in mpich/mpi, add SHA256 for download file.

pts/mrbayes-1.3.0 [View Source] Sat, 09 Sep 2017 14:07:59 GMT
Fix for higher core count CPUs

pts/mrbayes-1.2.0 [View Source] Mon, 06 Dec 2010 14:57:53 GMT
Initial import into OpenBenchmarking.org

Suites Using This Test

C/C++ Compiler Tests

CPU Massive

Scientific Computing

MPI Benchmarks

Bioinformatics

HPC - High Performance Computing

Performance Metrics

Analyze Test Configuration:

Timed MrBayes Analysis 3.2.7

Primate Phylogeny Analysis

OpenBenchmarking.org metrics for this test profile configuration based on 1,175 public results since 11 October 2019 with the latest data as of 10 April 2021.

Below is an overview of the generalized performance for components where there is sufficient statistically significant data based upon user-uploaded results. It is important to keep in mind particularly in the Linux/open-source space there can be vastly different OS configurations, with this overview intended to offer just general guidance as to the performance expectations.

Component

Percentile Rank

# Matching Public Results

Seconds (Average)

AMD Ryzen 5 5600X 6-Core

100th

55 ^{+/- 1}

AMD Ryzen 7 5800X 8-Core

98th

57 ^{+/- 1}

AMD Ryzen 9 5900X 12-Core

97th

58 ^{+/- 1}

Intel Core i9-11900K

96th

58 ^{+/- 2}

Intel Core i9-10900K

91st

64 ^{+/- 1}

AMD Ryzen 9 5950X 16-Core

89th

65 ^{+/- 7}

AMD Ryzen 7 3800XT 8-Core

89th

AMD Ryzen 7 3800X 8-Core

88th

68 ^{+/- 1}

2 x AMD EPYC 75F3 32-Core

88th

68 ^{+/- 2}

Intel Core i5-10600K

87th

AMD Ryzen 9 3900XT 12-Core

84th

AMD Ryzen 9 3950X 16-Core

84th

70 ^{+/- 1}

AMD Ryzen 9 3900X 12-Core

81st

72 ^{+/- 2}

AMD Ryzen 7 3700X 8-Core

79th

73 ^{+/- 7}

Intel Core i9-9900KS

77th

74 ^{+/- 2}

Mid-Tier

75th

> 77

Intel Core i5-7600K

75th

79 ^{+/- 1}

AMD EPYC 7262 8-Core

73rd

2 x AMD EPYC 7F72 24-Core

70th

85 ^{+/- 10}

2 x Intel Xeon Gold 6250

69th

86 ^{+/- 6}

Intel Core i7-8700B

68th

87 ^{+/- 2}

AMD EPYC 7302P 16-Core

68th

87 ^{+/- 3}

AMD EPYC 7272 12-Core

67th

AMD EPYC 7282 16-Core

66th

Intel Core i7-7700

65th

90 ^{+/- 13}

AMD EPYC 7402P 24-Core

64th

91 ^{+/- 12}

2 x AMD EPYC 7763 64-Core

63rd

AMD Ryzen 7 2700X Eight-Core

62nd

93 ^{+/- 5}

AMD EPYC 7502 32-Core

61st

94 ^{+/- 2}

AMD Ryzen Threadripper 3990X 64-Core

59th

96 ^{+/- 8}

AMD EPYC 7532 32-Core

58th

AMD EPYC 7502P 32-Core

56th

99 ^{+/- 12}

AMD Ryzen Threadripper 2950X 16-Core

56th

99 ^{+/- 3}

Intel Core i5-9500

55th

101

AMD EPYC 7642 48-Core

53rd

103 ^{+/- 2}

AMD EPYC 7552 48-Core

51st

104 ^{+/- 1}

Median

50th

105

AMD Ryzen Threadripper 2970WX 24-Core

50th

106 ^{+/- 2}

AMD EPYC 7742 64-Core

48th

107 ^{+/- 1}

Intel Core i9-7960X

46th

109 ^{+/- 5}

AMD Ryzen Threadripper 2990WX 32-Core

46th

109 ^{+/- 3}

Intel Core i9-10980XE

41st

112 ^{+/- 6}

Intel Core i7-5960X

41st

113 ^{+/- 4}

2 x AMD EPYC 7742 64-Core

40th

114 ^{+/- 13}

Intel Xeon E-2278GEL

37th

118 ^{+/- 16}

AMD EPYC 7702 64-Core

36th

121 ^{+/- 16}

Intel Core i9-7980XE

36th

121 ^{+/- 11}

Intel Xeon Gold 6226R

35th

124

2 x Intel Xeon Platinum 8280

31st

131 ^{+/- 12}

2 x Intel Xeon Gold 5220R

30th

134 ^{+/- 11}

2 x Intel Xeon Gold 6258R

30th

134 ^{+/- 15}

2 x Intel Xeon Platinum 8272CL

29th

135

2 x Intel Xeon Platinum 8259L

26th

140 ^{+/- 1}

Low-Tier

25th

> 140

AMD EPYC 7601 32-Core

22nd

147 ^{+/- 15}

Intel Core i7-8550U

22nd

149 ^{+/- 20}

Intel Xeon Gold 5218

21st

150 ^{+/- 4}

Intel Xeon Gold 5217

21st

156 ^{+/- 15}

2 x Intel Xeon Silver 4215R

19th

168

2 x Intel Xeon Gold 6138

17th

180

2 x Intel Xeon Silver 4214R

17th

180

Intel Xeon Platinum 8253

15th

194 ^{+/- 2}

Intel Xeon Silver 4216

15th

195 ^{+/- 2}

2 x Intel Xeon Silver 4210

13th

225

Intel Pentium G3258

11th

243 ^{+/- 35}

ARMv8 Neoverse-N1 64-Core

10th

257

Intel Xeon Silver 4108

10th

260 ^{+/- 5}

Based on OpenBenchmarking.org data, the selected test / test configuration (Timed MrBayes Analysis 3.2.7 - Primate Phylogeny Analysis) has an average run-time of 9 minutes. By default this test profile is set to run at least 3 times but may increase if the standard deviation exceeds pre-defined defaults or other calculations deem additional runs necessary for greater statistical accuracy of the result.

Based on public OpenBenchmarking.org results, the selected test / test configuration has an average standard deviation of 0.5%.

Does It Scale Well With Increasing Cores?

No, based on the automated analysis of the collected public benchmark data, this test / test settings does not generally scale well with increasing CPU core counts. Data based on publicly available results for this test / test settings, separated by vendor, result divided by the reference CPU clock speed, grouped by matching physical CPU core count, and normalized against the smallest core count tested from each vendor for each CPU having a sufficient number of test samples and statistically significant data.

Notable Instruction Set Usage

Notable instruction set extensions supported by this test, based on an automatic analysis by the Phoronix Test Suite / OpenBenchmarking.org analytics engine.

Instruction Set

Support

Instructions Detected

SSE 4.2 (SSE4_2)

Used by default on supported hardware.
Found on Intel processors since at least 2010.
Found on AMD processors since Bulldozer (2011).

POPCNT

Advanced Vector Extensions (AVX)

Used by default on supported hardware.
Found on Intel processors since Sandy Bridge (2011).
Found on AMD processors since Bulldozer (2011).

VZEROUPPER VEXTRACTF128 VBROADCASTSD VINSERTF128 VPERMILPD VBROADCASTSS VPERM2F128 VMASKMOVPS

Advanced Vector Extensions 2 (AVX2)

Used by default on supported hardware.
Found on Intel processors since Haswell (2013).
Found on AMD processors since Excavator (2016).

VEXTRACTI128 VPBROADCASTQ VINSERTI128 VPBROADCASTD VPERMQ VPERM2I128 VPERMD VPMASKMOVQ VPMASKMOVD VPERMPD VPGATHERQD VPGATHERDD VPGATHERQQ VGATHERQPD VPBLENDD VGATHERDPD VPBROADCASTB

FMA (FMA)

Used by default on supported hardware.
Found on Intel processors since Haswell (2013).
Found on AMD processors since Bulldozer (2011).

VFMADD132PS VFMADD231PS

The test / benchmark does honor compiler flag changes.

Last automated analysis: 30 January 2021

This test profile binary relies on the shared libraries libm.so.6, libreadline.so.8, libc.so.6, libtinfo.so.6.

Intel Core i5 11600K + Core i9 11900K Linux Performance 12 Systems - 453 Benchmark Results	Intel Core i9-11900K - ASUS ROG MAXIMUS XIII HERO - Intel Tiger Lake-H Ubuntu 21.04 - 5.12.0-051200rc3daily20210315-generic - GNOME Shell 3.38.3
bioinformatics_test 1 System - 4 Benchmark Results	AMD Ryzen Threadripper 3970X 32-Core - ASRock TRX40 Creator - AMD Starship Debian 10 - 4.19.0-16-amd64 - GNOME Shell 3.30.2
mini-3cs-made-ram 1 System - 115 Benchmark Results	Intel Xeon E3-1225 v6 - (2.002 BIOS) - Intel Xeon E3-1200 v6 Ubuntu 20.04 - 5.4.0-70-generic - 1.2.145
mini-ch-made-ram 1 System - 115 Benchmark Results	Intel Xeon E3-1225 v5 - INTEL H110 - Intel Xeon E3-1200 v5 Ubuntu 20.04 - 5.4.0-66-generic - 1.2.145
broadwell_cpu_bench 1 System - 105 Benchmark Results	Intel Core - Red Hat RHEL-AV - Intel 82G33 Debian 9.12 - 4.9.0-12-amd64 - GCC 6.3.0 20170516
noncpuflags_cpu_bench Featured Disk Comparison	18GB - 79GB
server-mem-test-20210407 1 System - 108 Benchmark Results	2 x Intel Xeon Gold 5218R - Supermicro X11DPX-T - Intel Device 2020 Ubuntu 16.04 - 4.15.0-140-generic - Unity 7.4.0
naraku-bench 1 System - 212 Benchmark Results	Intel Core i5-8250U - LENOVO 20L7CTO1WW - Intel Xeon E3-1200 v6 Debian testing - 5.10.0-5-amd64 - GNOME Shell 3.38.4
Intel Core i5 11600K + Core i9 11900K Linux Performance 9 Systems - 442 Benchmark Results	AMD Ryzen 9 5950X 16-Core - ASUS ROG CROSSHAIR VIII HERO - AMD Starship Ubuntu 21.04 - 5.12.0-051200rc3daily20210315-generic - GNOME Shell 3.38.3
5950-massive-definitive 1 System - 272 Benchmark Results
5950-massive-definitive 1 System - 272 Benchmark Results
Core i9 11900K + ASUS MAXIMUS XIII HERO 0703 BIOS Linux Performance 1 System - 323 Benchmark Results	Intel Core i9-11900K - ASUS ROG MAXIMUS XIII HERO - Intel Tiger Lake-H Ubuntu 21.04 - 5.12.0-051200rc3daily20210315-generic - GNOME Shell 3.38.3

Sandy 3 Systems - 268 Benchmark Results	Intel Core i5-2520M - HP 161C - Intel 2nd Generation Core DRAM Ubuntu 18.04 - 4.18.0-20-generic - GNOME Shell 3.28.3
Xeon & EPYC Tests 16 Systems - 119 Benchmark Results	2 x Intel Xeon Platinum 8280 - GIGABYTE MD61-SC2-00 v01000100 - Intel Sky Lake-E DMI3 Registers Ubuntu 20.04 - 5.4.0-18-generic - GNOME Shell 3.36.0
Ryzen 9 5900X / Ryzen 9 5950X Linux Performance 11 Systems - 217 Benchmark Results	AMD Ryzen 9 5900X 12-Core - ASUS ROG CROSSHAIR VIII HERO - AMD Starship Ubuntu 20.04 - 5.9.0-050900-generic - GNOME Shell 3.36.4
Core i9 10900K vs. Ryzen 9 3900X/3950X Linux Benchmarks Featured Processor Comparison	AMD Ryzen 9 3950X 16-Core - ASUS ROG CROSSHAIR VIII HERO - AMD Starship Ubuntu 20.04 - 5.7.0-999-generic - GNOME Shell 3.36.1
Core i9-10980XE vs. Threadripper 3 8 Systems - 360 Benchmark Results	Intel Core i9-7980XE - ASUS PRIME X299-A - Intel Sky Lake-E DMI3 Registers Ubuntu 19.10 - 5.4.0-999-generic - GNOME Shell 3.34.1
Core i5 10600K vs. Core i5 7600K vs. Core i5 4670 3 Systems - 301 Benchmark Results	Intel Core i5-4670 - MSI B85M-P33 - Intel 4th Gen Core DRAM Ubuntu 20.04 - 5.4.0-40-generic - GNOME Shell 3.36.3
AMD Threadripper 3960X vs. Intel Core i9 10980XE Featured Processor Comparison	Intel Core i9-10980XE - Gigabyte X299X DESIGNARE 10G - Intel Sky Lake-E DMI3 Registers Ubuntu 19.10 - 5.3.0-23-generic - GNOME Shell 3.34.1
High-End Intel/AMD Linux Ubuntu 19.10 Systems 18 Systems - 115 Benchmark Results	Intel Core i9-7980XE - ASUS PRIME X299-A - Intel Sky Lake-E DMI3 Registers Ubuntu 19.10 - 5.3.0-18-generic - GNOME Shell 3.34.1
Amazon Graviton2 vs. AMD EPYC 7742 3 Systems - 143 Benchmark Results	AMD EPYC 7742 64-Core - AMD DAYTONA_X - AMD Starship Ubuntu 20.04 - 5.4.0-31-generic - GNOME Shell 3.36.1
Threadripper 3970X Ubuntu 20.04 LTS vs. Windows WSL/WSL2 3 Systems - 173 Benchmark Results	AMD Ryzen Threadripper 3970X 32-Core - 64GB - 931GB Ubuntu 20.04 - 4.4.0-19041-Microsoft - GCC 9.3.0
Pop OS 20.04 vs. Ubuntu 20.04 Benchmarks 2 Systems - 269 Benchmark Results	AMD Ryzen Threadripper 3990X 64-Core - System76 Thelio Major - AMD Starship Ubuntu 20.04 - 5.4.0-29-generic - GNOME Shell 3.36.1
Ryzen 7 4700U vs. Core i7 1065G7 Ubuntu Linux 2 Systems - 150 Benchmark Results	AMD Ryzen 7 4700U - LENOVO LNVNB161216 - AMD Renoir Root Complex Ubuntu 20.04 - 5.7.0-999-generic - GNOME Shell 3.36.1