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

5 May 2021

Test Maintainer

Andrew Schofield

Test Type

Processor

Average Install Time

1 Minute, 36 Seconds

Average Run Time

24 Minutes, 20 Seconds

Test Dependencies

C/C++ Compiler Toolchain + OpenMPI

Accolades

150k+ Downloads

Supported Platforms

* Uploading of benchmark result data to OpenBenchmarking.org is always optional (opt-in) via the Phoronix Test Suite for users wishing to share their results publicly.
** 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.
*** Test profile page view reporting began March 2021.
Data current as of 15 June 2021.

Revision History

pts/mrbayes-1.5.0 [View Source] Wed, 05 May 2021 14:34:45 GMT
Increase ngen size.

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

HPC - High Performance Computing

MPI Benchmarks

Bioinformatics

Performance Metrics

Analyze Test Configuration:

Timed MrBayes Analysis 3.2.7

Primate Phylogeny Analysis

OpenBenchmarking.org metrics for this test profile configuration based on 306 public results since 5 May 2021 with the latest data as of 15 June 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

# Compatible Public Results

Seconds (Average)

Intel Core i9-11900K

98th

82 ^{+/- 11}

AMD Ryzen 5 5600X 6-Core

96th

AMD Ryzen 9 5900X 12-Core

94th

AMD Ryzen 7 5800X 8-Core

91st

AMD Ryzen 9 5950X 16-Core

86th

94 ^{+/- 2}

Intel Core i9-10900K

84th

Intel Core i5-10600K

81st

105 ^{+/- 1}

AMD Ryzen 5 3600XT 6-Core

81st

105

AMD Ryzen 9 3950X 16-Core

81st

105

AMD Ryzen 9 3900XT 12-Core

78th

107 ^{+/- 1}

AMD Ryzen 7 3700X 8-Core

78th

107 ^{+/- 1}

AMD Ryzen Threadripper 3970X 32-Core

76th

109

Mid-Tier

75th

> 112

AMD Ryzen 9 3900X 12-Core

74th

112

Intel Core i9-9900KS

74th

112 ^{+/- 1}

Intel Core i7-7700K

73rd

115 ^{+/- 1}

Intel Core i3-10100

73rd

115

Intel Core i7-8086K

69th

120

Intel Core i7-8700K

68th

121

Intel Xeon E3-1275 v6

65th

130

Intel Core i5-7600K

65th

130

Intel Core i7-7740K

64th

131

AMD Ryzen 5 3400G

64th

131 ^{+/- 3}

AMD Ryzen 7 3800XT 8-Core

63rd

133

AMD Ryzen 5 4500U

63rd

136 ^{+/- 5}

Intel Core i5-8400

62nd

137

Intel Core i3-7100

59th

139 ^{+/- 1}

2 x AMD EPYC 7763 64-Core

55th

142 ^{+/- 1}

AMD Ryzen 5 2400G

54th

143 ^{+/- 8}

Intel Xeon E-2288G

52nd

144

AMD Ryzen 3 1300X

52nd

144 ^{+/- 2}

Intel Core i3-8100

52nd

144

Median

50th

145

Intel Xeon E3-1245 v5

49th

145

AMD Ryzen Threadripper 3990X 64-Core

48th

152 ^{+/- 3}

Intel Core i7-1165G7

46th

154 ^{+/- 2}

Intel Xeon E3-1270 v5

43rd

156 ^{+/- 1}

AMD Ryzen 7 2700 Eight-Core

42nd

157 ^{+/- 4}

Intel Core i5-6500

40th

158 ^{+/- 1}

AMD Ryzen Threadripper 2990WX 32-Core

40th

159 ^{+/- 1}

Intel Xeon E3-1260L v5

38th

167 ^{+/- 1}

AMD Ryzen Threadripper 2970WX 24-Core

36th

172 ^{+/- 1}

Intel Core i3-4130

34th

173 ^{+/- 1}

Intel Core i7-6800K

32nd

176 ^{+/- 4}

2 x Intel Xeon Platinum 8380

32nd

176 ^{+/- 21}

AMD Ryzen 7 1700 Eight-Core

30th

177 ^{+/- 12}

AMD Ryzen Threadripper 2950X 16-Core

30th

177 ^{+/- 1}

Intel Core i9-7980XE

28th

178 ^{+/- 1}

AMD Ryzen 3 3200U

27th

179 ^{+/- 1}

Intel Core i7-9750H

27th

179 ^{+/- 3}

Intel Core i9-10980XE

27th

179 ^{+/- 2}

Low-Tier

25th

> 181

Intel Core i7-4770K

23rd

184 ^{+/- 2}

Intel Xeon E5-2687W v3

21st

186 ^{+/- 2}

Intel Core i7-8550U

20th

189 ^{+/- 5}

Intel Xeon E3-1235L v5

18th

192 ^{+/- 1}

Intel Core i7-10700T

18th

192

2 x Intel Xeon Platinum 8280

18th

192 ^{+/- 2}

Intel Xeon Gold 6226R

15th

196 ^{+/- 6}

Intel Core i7-8565U

14th

202 ^{+/- 10}

Intel Core i7-1065G7

13th

205 ^{+/- 6}

2 x AMD EPYC 7601 32-Core

12th

209 ^{+/- 4}

Intel Core i7-4960X

9th

217 ^{+/- 4}

Intel Core i7-3770K

8th

218 ^{+/- 2}

2 x Intel Xeon Gold 5220R

8th

219 ^{+/- 8}

Ampere Altra ARMv8 Neoverse-N1 160-Core

4th

296 ^{+/- 2}

Intel Xeon E5-2609 v4

3rd

302 ^{+/- 1}

Intel Xeon Silver 4216

2nd

368 ^{+/- 2}

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 7 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 0.3%.

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 VINSERTF128 VBROADCASTSD VBROADCASTSS VPERM2F128 VPERMILPD VBROADCASTF128 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 VPBROADCASTD VINSERTI128 VPERMQ VPERM2I128 VPERMD VPMASKMOVQ VPMASKMOVD VPERMPD VPGATHERQD VPGATHERDD VPGATHERQQ VGATHERQPD VPBLENDD VGATHERDPD

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: 10 May 2021

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

WOICA0517 1 System - 17 Benchmark Results	Intel Pentium G4600 - FUJITSU D3433-S2 - Intel Xeon E3-1200 v6 Ubuntu 21.04 - 5.11.0-18-generic - GCC 10.3.0
Compiler Optimization Levels 2 Systems - 118 Benchmark Results	Intel Core i9-11900K - ASUS ROG MAXIMUS XIII HERO - Intel Tiger Lake-H Fedora 34 - 5.12.9-300.fc34.x86_64 - GNOME Shell 40.1
1260L June 3 Systems - 177 Benchmark Results	Intel Xeon E3-1260L v5 - ASRock E3V5 WS - Intel Xeon E3-1200 v5 Ubuntu 20.10 - 5.8.0-41-generic - GNOME Shell 3.38.1
1275 june 4 Systems - 172 Benchmark Results	Intel Xeon E3-1275 v6 - ASUS P10S-M WS - Intel Xeon E3-1200 v6 Ubuntu 20.04 - 5.9.0-050900rc8daily20201007-generic - X Server 1.20.8
7100 june 3 Systems - 117 Benchmark Results	Intel Core i3-7100 - Gigabyte B250M-DS3H-CF - Intel Xeon E3-1200 v6 Ubuntu 20.10 - 5.8.0-48-generic - GNOME Shell 3.38.1
bioinformatics-40c-dedicated 1 System - 5 Benchmark Results	2 x Intel Xeon - OpenStack Foundation Nova v21.0.0 - Intel 440FX 82441FX PMC Ubuntu 20.04 - 5.4.0-74-generic - GCC 9.3.0
bioinformatics-40c-shared 1 System - 5 Benchmark Results	2 x Intel Xeon - OpenStack Foundation Nova v21.0.0 - Intel 440FX 82441FX PMC Ubuntu 20.04 - 5.4.0-74-generic - GCC 9.3.0
1245 2021 3 Systems - 200 Benchmark Results	Intel Xeon E3-1245 v5 - MSI C236A WORKSTATION - Intel Xeon E3-1200 v5 Ubuntu 20.04 - 5.9.0-050900rc7daily20201003-generic - GNOME Shell 3.36.4
epsilon-all-f 1 System - 38 Benchmark Results	2 x Intel Xeon E5-2630 v4 - Supermicro X10DRT-H v1.02 - Intel Xeon E7 v4 Debian 10 - 4.19.0-16-amd64 - GCC 8.3.0
2021-05-31-1316 1 System - 1 Benchmark Result	2 x Intel Xeon E5-2630 0 - Supermicro X9DR3-F - Intel Xeon E5 Ubuntu 20.04 - 5.8.0-41-generic - X Server 1.20.9
Intel Core i5 11600K + Core i9 11900K Linux Performance 11 Systems - 454 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
GCC 11 vs. LLVM Clang 12 Benchmarks On Xeon Ice Lake Featured Compiler Comparison	GCC 11.1.1 20210428 - Clang 12.0.0

1235 may 3 Systems - 37 Benchmark Results	Intel Xeon E3-1235L v5 - ASRockRack C236M WS - Intel Xeon E3-1200 v5 Ubuntu 20.04 - 5.8.0-050800-generic - GNOME Shell 3.36.4
7100 june 3 Systems - 117 Benchmark Results	Intel Core i3-7100 - Gigabyte B250M-DS3H-CF - Intel Xeon E3-1200 v6 Ubuntu 20.10 - 5.8.0-48-generic - GNOME Shell 3.38.1
Ryzen 9 5950X Clang 12 vs. GCC 11 Benchmarks Featured Compiler Comparison	AMD Ryzen 9 5950X 16-Core - ASUS ROG CROSSHAIR VIII HERO - AMD Starship Fedora 34 - 5.11.20-300.fc34.x86_64 - GNOME Shell 40.1
1275 june 4 Systems - 172 Benchmark Results	Intel Xeon E3-1275 v6 - ASUS P10S-M WS - Intel Xeon E3-1200 v6 Ubuntu 20.04 - 5.9.0-050900rc8daily20201007-generic - X Server 1.20.8
3950x may 6 Systems - 36 Benchmark Results	AMD Ryzen 9 3950X 16-Core - ASUS ROG CROSSHAIR VII HERO - AMD Starship Ubuntu 20.04 - 5.9.0-050900rc6daily20200922-generic - GNOME Shell 3.36.4
6800K May 3 Systems - 167 Benchmark Results	Intel Core i7-6800K - MSI X99A WORKSTATION - Intel Xeon E7 v4 Ubuntu 20.10 - 5.8.0-41-generic - GNOME Shell 3.38.1
tr 2970wx may 4 Systems - 11 Benchmark Results	AMD Ryzen Threadripper 2970WX 24-Core - Gigabyte X399 AORUS Gaming 7 - AMD 17h Ubuntu 20.04 - 5.9.0-050900rc6daily20200926-generic - GNOME Shell 3.36.4
gold may 2 Systems - 38 Benchmark Results	Intel Xeon Gold 6226R - Supermicro X11SPL-F v1.02 - Intel Sky Lake-E DMI3 Registers Ubuntu 20.10 - 5.11.0-rc4-max-boost-inv-patch - GNOME Shell 3.38.1
10100 may 3 Systems - 62 Benchmark Results	Intel Core i3-10100 - Gigabyte B460M DS3H - Intel Device 9b63 Ubuntu 20.04 - 5.9.0-050900rc7daily20201002-generic - GNOME Shell 3.36.3
3700X Mayt 3 Systems - 78 Benchmark Results	AMD Ryzen 7 3700X 8-Core - Gigabyte A320M-S2H-CF - AMD Starship Ubuntu 20.04 - 5.8.1-050801-generic - GNOME Shell 3.36.4
1-0600k mat 3 Systems - 37 Benchmark Results	Intel Core i5-10600K - ASUS PRIME Z490M-PLUS - Intel Comet Lake PCH Ubuntu 20.10 - 5.11.0-051100rc2daily20210106-generic - GNOME Shell 3.38.1
5600x may 3 Systems - 25 Benchmark Results	AMD Ryzen 5 5600X 6-Core - ASUS TUF GAMING B550M-PLUS - AMD Starship Ubuntu 20.10 - 5.8.0-50-generic - GNOME Shell 3.38.1

Timed MrBayes Analysis

Project Site

Test Created

Last Updated

Test Maintainer

Test Type

Average Install Time

Average Run Time

Test Dependencies

Accolades

Supported Platforms

Revision History

Suites Using This Test

Performance Metrics

Timed MrBayes Analysis 3.2.7

Primate Phylogeny Analysis

Does It Scale Well With Increasing Cores?

Notable Instruction Set Usage

Recent Test Results

Most Popular Test Results