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, 16 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 27 September 2022.

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

HPC - High Performance Computing

Scientific 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 726 public results since 5 May 2021 with the latest data as of 27 September 2022.

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)

AMD Ryzen 9 7900X 12-Core

100th

AMD Ryzen 9 7950X 16-Core

100th

69 ^{+/- 2}

Intel Core i7-12700K

98th

73 ^{+/- 1}

Intel Core i9-11900K

97th

82 ^{+/- 10}

AMD Ryzen 7 5800X3D 8-Core

97th

AMD Ryzen 7 5800X 8-Core

94th

84 ^{+/- 3}

AMD Ryzen 5 5600X 6-Core

92nd

86 ^{+/- 9}

AMD EPYC 72F3 8-Core

89th

89 ^{+/- 4}

AMD Ryzen 7 5700G

87th

91 ^{+/- 3}

AMD Ryzen 9 5950X 16-Core

86th

93 ^{+/- 2}

Intel Core i9-10900K

83rd

AMD EPYC 7373X 16-Core

82nd

2 x AMD EPYC 7373X 16-Core

81st

101 ^{+/- 1}

AMD EPYC 75F3 32-Core

79th

104

AMD Ryzen 9 3950X 16-Core

79th

104 ^{+/- 2}

AMD EPYC 7F52 16-Core

79th

104

AMD Ryzen 5 3600XT 6-Core

76th

105

Intel Core i5-10600K

76th

105 ^{+/- 1}

2 x AMD EPYC 75F3 32-Core

76th

105

Mid-Tier

75th

> 105

AMD Ryzen 7 3700X 8-Core

75th

106

AMD Ryzen 9 3900X 12-Core

74th

107 ^{+/- 5}

AMD EPYC 7F32 8-Core

74th

107

AMD Ryzen 9 3900XT 12-Core

74th

107 ^{+/- 1}

AMD Ryzen Threadripper 3970X 32-Core

73rd

109

Intel Core i9-9900KS

71st

112 ^{+/- 1}

Intel Core i7-7700K

70th

115 ^{+/- 1}

Intel Core i3-10100

70th

115

2 x AMD EPYC 7453 28-Core

69th

117 ^{+/- 2}

Intel Core i7-8086K

68th

120

Intel Core i7-8700K

67th

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

Intel Core i7-10750H

63rd

133 ^{+/- 8}

AMD Ryzen 5 4500U

62nd

136 ^{+/- 5}

Intel Core i5-8400

62nd

137

Intel Core i3-7100

62nd

137 ^{+/- 6}

Intel Xeon E3-1280 v5

57th

141 ^{+/- 1}

2 x AMD EPYC 7763 64-Core

56th

142 ^{+/- 1}

AMD Ryzen 5 2400G

55th

143 ^{+/- 8}

AMD EPYC 7713 64-Core

55th

143 ^{+/- 5}

Intel Xeon E-2288G

54th

144

AMD Ryzen 3 1300X

54th

144 ^{+/- 2}

Intel Core i3-8100

54th

144

Intel Xeon E3-1245 v5

52nd

145

2 x AMD EPYC 7773X 64-Core

51st

149 ^{+/- 17}

Median

50th

151

AMD Ryzen 7 4700U

50th

151 ^{+/- 2}

AMD EPYC 7742 64-Core

48th

154

Intel Core i7-1165G7

48th

154 ^{+/- 2}

Intel Xeon E3-1270 v5

46th

156 ^{+/- 1}

AMD Ryzen 7 2700 Eight-Core

45th

157 ^{+/- 4}

2 x AMD EPYC 7742 64-Core

44th

158 ^{+/- 1}

Intel Core i5-6500

44th

158 ^{+/- 1}

Intel Xeon E3-1260L v5

40th

167 ^{+/- 1}

AMD Ryzen Threadripper 2970WX 24-Core

37th

172 ^{+/- 1}

Intel Core i3-4130

36th

173 ^{+/- 1}

2 x Intel Xeon Platinum 8380

36th

174 ^{+/- 17}

Intel Core i7-6800K

35th

176 ^{+/- 4}

AMD Ryzen 7 1700 Eight-Core

34th

177 ^{+/- 12}

Intel Core i9-7980XE

33rd

178 ^{+/- 1}

AMD Ryzen 3 3200U

32nd

179 ^{+/- 1}

Intel Core i7-9750H

32nd

179 ^{+/- 3}

AMD Ryzen Threadripper 2950X 16-Core

31st

182 ^{+/- 13}

Intel Core i7-4770K

30th

184 ^{+/- 2}

Intel Xeon E5-2687W v3

29th

186 ^{+/- 2}

Intel Xeon E3-1235L v5

26th

192 ^{+/- 1}

Intel Core i7-5960X

26th

192 ^{+/- 2}

2 x Intel Xeon Platinum 8280

26th

192 ^{+/- 2}

Intel Core i7-10700T

26th

192

Low-Tier

25th

> 192

Intel Xeon E3-1231 v3

24th

194

Apple M2

24th

196 ^{+/- 22}

Intel Xeon Gold 6226R

24th

196 ^{+/- 6}

Intel Core i7-8565U

22nd

202 ^{+/- 10}

Intel Core i7-1065G7

22nd

205 ^{+/- 6}

2 x AMD EPYC 7601 32-Core

21st

209 ^{+/- 4}

Intel Core i7-4960X

20th

217 ^{+/- 4}

Intel Core i7-3770K

20th

218 ^{+/- 2}

2 x Intel Xeon Gold 5220R

19th

219 ^{+/- 8}

Ampere Altra ARMv8 Neoverse-N1 160-Core

15th

296 ^{+/- 2}

Intel Xeon E5-2609 v4

14th

302 ^{+/- 1}

Intel Core i7-2700K

13th

328 ^{+/- 3}

Intel Xeon Silver 4216

12th

368 ^{+/- 2}

Intel Core i7-9850H

9th

495 ^{+/- 7}

Intel Xeon W-3235

8th

537 ^{+/- 6}

Intel Xeon W-2123

7th

572 ^{+/- 7}

4 x AMD Opteron 8378

6th

599 ^{+/- 2}

Ampere eMAG ARMv8 32-Core

2nd

1221

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 14 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 0.4%.

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 VBROADCASTSD VPERMILPD VBROADCASTSS VEXTRACTF128 VINSERTF128

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 VPERMD VPERM2I128 VPERMPD VPGATHERQD VPGATHERDD VPGATHERQQ VGATHERQPD VGATHERDPD VPBROADCASTB

Advanced Vector Extensions 512 (AVX512)

Used by default on supported hardware.

(ZMM REGISTER USE)

FMA (FMA)

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

VFMADD231PS

The test / benchmark does honor compiler flag changes.

Last automated analysis: 18 January 2022

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

Tested CPU Architectures

This benchmark has been successfully tested on the below mentioned architectures. The CPU architectures listed is where successful OpenBenchmarking.org result uploads occurred, namely for helping to determine if a given test is compatible with various alternative CPU architectures.

CPU Architecture

Kernel Identifier

Verified On

Intel / AMD x86 64-bit

x86_64

(Many Processors)

Itanium 64-bit

ia64

2 x Madison

ARMv7 32-bit

armv7l

ARMv7 Cortex-A72 4-Core

ARMv8 64-bit

arm64

Apple M1 Pro

DEC Alpha

alpha

Alpha

ARMv8 64-bit

aarch64

ARMv8 Cortex-A72, ARMv8 Cortex-A72 4-Core, ARMv8 Neoverse-N1, ARMv8 Neoverse-N1 80-Core, ARMv8 Neoverse-V1, Ampere ARMv8 Neoverse-N1 160-Core, Ampere ARMv8 Neoverse-N1 256-Core, Ampere Altra ARMv8 Neoverse-N1 160-Core, Ampere eMAG ARMv8 32-Core, Apple M2

ryzen 7000 series extra 3 Systems - 357 Benchmark Results	AMD Ryzen 7 7700X 8-Core - ASUS ROG CROSSHAIR X670E HERO - AMD Device 14d8 Ubuntu 22.04 - 6.0.0-060000rc1daily20220820-generic - GNOME Shell 42.2
ryzen 7000 series extra 3 Systems - 357 Benchmark Results
Ryzen 9 5900X / Ryzen 9 5950X Linux Performance 13 Systems - 228 Benchmark Results	AMD Ryzen 9 7950X 16-Core - ASUS ROG CROSSHAIR X670E HERO - AMD Device 14d8 Fedora Linux 36 - 6.0.0-0.rc5.20220914git3245cb65fd91.39.vanilla.1.fc36.x86_64 - GNOME Shell 42.4
ryzen 7000 series extra 4 Systems - 361 Benchmark Results	AMD Ryzen 9 7950X 16-Core - ASUS ROG CROSSHAIR X670E HERO - AMD Device 14d8 Ubuntu 22.04 - 6.0.0-060000rc1daily20220820-generic - GNOME Shell 42.2
AMD Ryzen 7900 Series Linux CPU Benchmarks 13 Systems - 333 Benchmark Results	AMD Ryzen 9 3950X 16-Core - ASUS ROG CROSSHAIR VIII HERO - AMD Starship Ubuntu 22.04 - 6.0.0-060000rc1daily20220820-generic - GNOME Shell 42.2
timed mrbayes analysis 1 System - 1 Benchmark Result	AMD A9-9420 RADEON R5 5 COMPUTE CORES 2C+3G - ASUS X505BA v1.0 - AMD 15h Ubuntu 22.04 - 5.15.0-47-generic - GNOME Shell 42.2
sexta prueb 1 System - 1 Benchmark Result	Intel Core i3 350M - Acer ZR7 - Intel Core DRAM Linuxmint 20 - 5.4.0-26-generic - Cinnamon 4.6.6
prueba MrBayes 1 System - 1 Benchmark Result	AMD Ryzen 5 5600G - ASRock B450M Pro4-F - AMD Renoir Arch Linux - 5.17.9-arch1-1 - KDE Plasma 5.24.5
test7 1 System - 1 Benchmark Result	Intel Core i5-5300U - HP 2216 - Intel Broadwell-U-OPI Ubuntu 20.04 - 5.4.0-121-generic - GNOME Shell 3.36.9
prueba7mrbayes 1 System - 1 Benchmark Result	AMD Ryzen 5 3450U - Dell 0Y6PDY - AMD Raven Ubuntu 20.04 - 5.14.0-1050-oem - GNOME Shell 3.36.9
Threadr1_compiler1sep22 1 System - 43 Benchmark Results
Test MrBayes 1 System - 1 Benchmark Result	AMD E-350D APU - Gigabyte E350N WIN8 - AMD 14h Root Complex Ubuntu 20.04 - 5.15.0-46-generic - GNOME Shell 3.36.9
Test compiler flags 5 Systems - 12 Benchmark Results	AMD Ryzen 7 PRO 5850U - LENOVO 20X7003WFR - AMD Renoir Clear Linux OS 36930 - 5.19.4-1181.native - KDE Plasma 5.25.4
Test compiler flags 4 Systems - 12 Benchmark Results	AMD Ryzen 7 PRO 5850U - LENOVO 20X7003WFR - AMD Renoir Calculate Linux Desktop 22.0.1 KDE - 5.19.4-calculate - KDE Plasma 5.24.6
25AUG22 1 System - 11 Benchmark Results	AMD Ryzen 9 5900X 12-Core - ASRock B450M Pro4-F - 4 x 16384 MB 2800MHz Kingston KHX2666C16 Microsoft Windows 10 Pro Build 19044 - 10.0.19044.1889 - 456.71

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
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
6500 May 4 Systems - 82 Benchmark Results	Intel Core i5-6500 - Gigabyte Z170M-D3H-CF - Intel Xeon E3-1200 v5 Ubuntu 20.04 - 5.9.0-050900rc7daily20200929-generic - GNOME Shell 3.36.4
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
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
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
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
xeon broadwell may 2021 3 Systems - 164 Benchmark Results	Intel Xeon E5-2609 v4 - MSI X99A RAIDER - Intel Xeon E7 v4 Ubuntu 20.04 - 5.9.0-050900rc6daily20200926-generic - GNOME Shell 3.36.2
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
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
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
clearlinux-ryzen3-4350 6 Systems - 254 Benchmark Results	AMD Ryzen 3 PRO 4350G - ASRock B450M Pro4 - AMD Renoir Root Complex Clear Linux OS 34550 - 5.10.32-1035.native - GNOME Shell 40.0
onerun-surplus 10 Systems - 59 Benchmark Results	AMD EPYC 7763 64-Core - AMD DAYTONA_X - AMD Starship Ubuntu 20.04 - 5.11.6-051106-generic - GNOME Shell 3.36.4
7700k may 3 Systems - 162 Benchmark Results	Intel Core i7-7700K - MSI Z270-A PRO - Intel Xeon E3-1200 v6 Ubuntu 20.04 - 5.9.0-050900rc8daily20201011-generic - X Server 1.20.8
Clear Compare BSD 2 Systems - 222 Benchmark Results	Intel Core i9-10980XE - Intel Sky Lake-E DMI3 Registers - 32GB FreeBSD - 13.0-RELEASE - Clang 11.0.1

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

Tested CPU Architectures

Recent Test Results

Most Popular Test Results