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, 1 Second

Average Run Time

24 Minutes, 20 Seconds

Test Dependencies

C/C++ Compiler Toolchain + OpenMPI

Accolades

200k+ 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 updated weekly as of 22 November 2024.

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

HPC - High Performance Computing

CPU Massive

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 1,124 public results since 5 May 2021 with the latest data as of 15 November 2024.

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 9950X 16-Core

100th

55 ^{+/- 1}

AMD Ryzen 7 7700X 8-Core

99th

66 ^{+/- 1}

AMD Ryzen 5 7600X 6-Core

98th

AMD Ryzen 9 7950X 16-Core

97th

68 ^{+/- 2}

AMD Ryzen 9 7900X 12-Core

97th

69 ^{+/- 1}

Intel Core i7-12700K

95th

73 ^{+/- 1}

AMD Ryzen 9 7900 12-Core

94th

74 ^{+/- 2}

Intel Core i9-11900K

93rd

82 ^{+/- 10}

AMD Ryzen 7 5800X3D 8-Core

91st

84 ^{+/- 1}

AMD Ryzen 7 5800X 8-Core

91st

84 ^{+/- 3}

AMD Ryzen 5 5600X 6-Core

91st

85 ^{+/- 8}

AMD Ryzen 5 5600G

89th

87 ^{+/- 6}

AMD EPYC 72F3 8-Core

88th

89 ^{+/- 4}

AMD Ryzen 7 5700G

86th

91 ^{+/- 3}

AMD Ryzen 9 5950X 16-Core

84th

94 ^{+/- 3}

Intel Core i9-10900K

82nd

AMD EPYC 7373X 16-Core

81st

2 x AMD EPYC 7373X 16-Core

81st

101 ^{+/- 1}

AMD EPYC 7F52 16-Core

79th

104

AMD Ryzen 9 3950X 16-Core

79th

104 ^{+/- 2}

AMD EPYC 75F3 32-Core

79th

104

2 x AMD EPYC 75F3 32-Core

77th

105

Intel Core i5-10600K

77th

105 ^{+/- 1}

AMD Ryzen 5 3600XT 6-Core

77th

105

AMD Ryzen 7 3700X 8-Core

76th

106

AMD Ryzen 9 3900XT 12-Core

76th

106 ^{+/- 2}

Mid-Tier

75th

> 107

AMD EPYC 7F32 8-Core

75th

107

AMD Ryzen 9 3900X 12-Core

75th

107 ^{+/- 5}

AMD Ryzen Threadripper 3970X 32-Core

75th

109

AMD Ryzen Threadripper PRO 7995WX 96-Cores

73rd

111 ^{+/- 2}

Intel Core i9-9900KS

73rd

112 ^{+/- 1}

Intel Core i5-13600K

73rd

112 ^{+/- 3}

Intel Core i3-10100

71st

115

Intel Core i7-7700K

71st

115 ^{+/- 1}

2 x AMD EPYC 7453 28-Core

69th

117 ^{+/- 2}

Intel Core i7-8086K

68th

120

Intel Core i7-8700K

67th

121

Intel Core i9-13900K

67th

123 ^{+/- 12}

Intel Core i5-13400

66th

125 ^{+/- 1}

Intel Xeon Gold 6346

65th

128 ^{+/- 1}

2 x Intel Xeon Gold 6346

65th

128 ^{+/- 1}

Intel Core i5-7600K

63rd

130

Intel Xeon E3-1275 v6

63rd

130

Intel Core i7-7740K

63rd

131

AMD Ryzen 5 4500U

62nd

133 ^{+/- 9}

Intel Core i7-10750H

62nd

133 ^{+/- 8}

AMD Ryzen 7 3800XT 8-Core

62nd

133

Intel Core i3-7100

61st

137 ^{+/- 6}

Intel Core i5-8400

61st

137

Intel Xeon Gold 6342

59th

139

AMD EPYC 7763 64-Core

58th

140 ^{+/- 3}

2 x Intel Xeon Gold 6342

57th

141

Intel Xeon E3-1280 v5

57th

141 ^{+/- 1}

2 x AMD EPYC 7763 64-Core

56th

142 ^{+/- 1}

AMD EPYC 7713 64-Core

55th

143 ^{+/- 5}

AMD Ryzen 5 2400G

55th

143 ^{+/- 7}

AMD Ryzen 3 1300X

55th

144 ^{+/- 2}

Intel Xeon E-2288G

55th

144

Intel Core i3-8100

55th

144

Intel Xeon E3-1245 v5

53rd

145

Intel Core i7-1165G7

52nd

148 ^{+/- 12}

2 x Intel Xeon Platinum 8362

51st

149 ^{+/- 2}

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 Xeon E3-1270 v5

47th

156 ^{+/- 1}

AMD Ryzen 7 2700 Eight-Core

46th

157 ^{+/- 4}

Intel Core i5-6500

45th

158 ^{+/- 1}

2 x AMD EPYC 7742 64-Core

45th

158 ^{+/- 1}

AMD Ryzen 7 1700 Eight-Core

44th

159 ^{+/- 13}

Intel Core i5-4570

43rd

165 ^{+/- 4}

Intel Xeon E3-1260L v5

42nd

167 ^{+/- 1}

Intel Xeon Platinum 8380

42nd

168 ^{+/- 1}

2 x Intel Xeon Platinum 8380

40th

171 ^{+/- 11}

AMD Ryzen Threadripper 2970WX 24-Core

39th

172 ^{+/- 1}

Intel Core i3-4130

39th

173 ^{+/- 1}

Intel Core i7-6800K

38th

176 ^{+/- 4}

Intel Core i9-7980XE

36th

178 ^{+/- 1}

AMD Ryzen 3 3200U

36th

179 ^{+/- 1}

Intel Core i7-9750H

36th

179 ^{+/- 3}

AMD Ryzen Threadripper 2950X 16-Core

35th

182 ^{+/- 13}

Intel Core i7-4770K

34th

184 ^{+/- 2}

Intel Xeon E5-2687W v3

34th

186 ^{+/- 2}

Intel Xeon E3-1235L v5

31st

192 ^{+/- 1}

2 x Intel Xeon Platinum 8280

31st

192 ^{+/- 2}

Intel Core i7-5960X

31st

192 ^{+/- 2}

Intel Core i7-10700T

31st

192

Intel Core Ultra 7 155H

30th

194 ^{+/- 5}

Intel Xeon E3-1231 v3

30th

194

Apple M2

29th

196 ^{+/- 22}

Intel Xeon Gold 6226R

29th

196 ^{+/- 6}

AMD EPYC 7601 32-Core

28th

199 ^{+/- 5}

2 x Intel Xeon E5-2680 v3

27th

202 ^{+/- 3}

Intel Core i7-8565U

27th

202 ^{+/- 10}

2 x AMD EPYC 7601 32-Core

26th

209 ^{+/- 4}

Low-Tier

25th

> 209

Intel Core i7-4960X

24th

217 ^{+/- 4}

Intel Core i7-3770K

24th

218 ^{+/- 2}

2 x Intel Xeon Gold 5220R

24th

219 ^{+/- 8}

Apple M1

21st

242 ^{+/- 2}

Ampere Altra ARMv8 Neoverse-N1 160-Core

18th

296 ^{+/- 2}

Intel Xeon E5-2609 v4

17th

302 ^{+/- 1}

ARMv8 Neoverse-N1 160-Core

16th

315 ^{+/- 16}

Intel Core i7-2700K

15th

328 ^{+/- 3}

Intel Xeon Silver 4216

14th

368 ^{+/- 2}

ARMv8 Cortex-A76 4-Core

12th

419 ^{+/- 10}

Intel Core i7-9850H

10th

495 ^{+/- 7}

Intel Xeon W-3235

10th

537 ^{+/- 6}

Intel Xeon W-2123

9th

572 ^{+/- 7}

4 x AMD Opteron 8378

8th

599 ^{+/- 2}

Ampere eMAG ARMv8 32-Core

3rd

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 15 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 0.6%.

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)

IBM POWER (PowerPC) 64-bit

ppc64le

POWER8E

Itanium 64-bit

ia64

2 x Madison

ARMv7 32-bit

armv7l

ARMv7 Cortex-A72 4-Core

ARMv8 64-bit

arm64

Apple M1, Apple M1 Pro

DEC Alpha

alpha

Alpha

ARMv8 64-bit

aarch64

ARMv8, ARMv8 Cortex-A72, ARMv8 Cortex-A72 4-Core, ARMv8 Cortex-A76 4-Core, ARMv8 Neoverse-N1, ARMv8 Neoverse-N1 160-Core, 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, Rockchip ARMv8 Cortex-A76 4-Core

2022-05-06-0933 3 Systems - 42 Benchmark Results	Intel Xeon Silver 4110 - FUJITSU D3384-A1 - Intel Sky Lake-E DMI3 Registers Debian 12 - 6.1.0-26-amd64 - GCC 12.2.0
2022-05-06-0933 3 Systems - 42 Benchmark Results	Intel Xeon Silver 4110 - FUJITSU D3384-A1 - Intel Sky Lake-E DMI3 Registers Debian 12 - 6.1.0-26-amd64 - GCC 12.2.0
2022-05-06-0933 2 Systems - 42 Benchmark Results	4 x AMD Opteron 8378 - HP ProLiant DL585 G5 - AMD 10h HyperTransport Configuration Debian 11 - 5.10.0-14-amd64 - 1.0.2
bio 1 System - 10 Benchmark Results	AMD Ryzen 5 4500U - LENOVO IdeaPad Flex 5 14ARE05 LNVNB161216 - AMD Renoir Ubuntu 22.04 - 6.8.0-47-generic - GNOME Shell 42.9
bioinf 1 System - 10 Benchmark Results	AMD Ryzen 9 5900X 12-Core - ASRock X570 Steel Legend - AMD Starship Ubuntu 24.04 - 6.8.0-47-generic - GNOME Shell 46.0
some3600 4 Systems - 14 Benchmark Results	AMD Ryzen 9 9950X 16-Core - ASRock X670E PG Lightning - AMD Device 14d8 Ubuntu 24.04 - 6.8.0-45-generic - KDE Plasma 5.27.11
some3600 3 Systems - 14 Benchmark Results	AMD Ryzen 9 9950X 16-Core - ASRock X670E PG Lightning - AMD Device 14d8 Ubuntu 24.04 - 6.8.0-45-generic - KDE Plasma 5.27.11
some3600 1 System - 16 Benchmark Results	AMD Ryzen 9 9950X 16-Core - ASRock X670E PG Lightning - AMD Device 14d8 Ubuntu 24.04 - 6.8.0-45-generic - KDE Plasma 5.27.11
Prueba Timed MrBayes Analysis 1 System - 1 Benchmark Result	Intel Core i3-1005G1 - Oracle VirtualBox v1.2 - Intel 440FX 82441FX PMC Zorin 16 - 5.15.0-84-generic - GNOME Shell 3.38.4
test-duct 1 System - 93 Benchmark Results	2 x AMD EPYC 9554 64-Core - Giga Computing MZ73-LM0-000 - 16 x 65536MB 4800MHz Samsung M321R8GA0PB0-CWMXJ Microsoft Windows Server 2022 Standard Build 20348 - 10.0.20348.2655 - 9.0.10.115
prueba-bayes 1 System - 1 Benchmark Result	Intel Core 2 Duo T6600 - Gateway NV48 SJV40-MV - Intel Mobile 4 MCH + ICH9M Linuxmint 21 - 5.15.0-118-generic - X Server 1.21.1.4
7 1 System - 1 Benchmark Result	Intel Core i5-12450H - 8GB - 0GB Virtual Disk + 2GB Virtual Disk + 1100GB Virtual Disk Ubuntu 22.04 - 5.15.153.1-microsoft-standard-WSL2 - Wayland
pts/mrbayes_zarco 1 System - 1 Benchmark Result	Intel Core i5-1235U - HP 8A34 v43.19 - Intel Alder Lake PCH Fedora Linux 38 - 6.8.9-100.fc38.x86_64 - GNOME Shell 44.10
Prueba7Beto 1 System - 1 Benchmark Result	AMD Ryzen 7 5700U - LN Swift SF314-43 Sake_CA - AMD Renoir Ubuntu 24.04 - 6.8.0-31-generic - GNOME Shell 46.0
Prueba: Timed MrBayes Analysis 1 System - 1 Benchmark Result	AMD Ryzen 5 5500U - HUAWEI NBM-WXX9-PCB-B2 - AMD Renoir Ubuntu 22.04 - 6.8.0-40-generic - GNOME Shell 42.9

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
Intel Core i9 13900K Linux CPU Benchmarks 16 Systems - 333 Benchmark Results	Intel Core i9-12900K - ASUS ROG STRIX Z690-E GAMING WIFI - Intel Device 7aa7 Ubuntu 22.04 - 6.0.0-060000rc1daily20220820-generic - GNOME Shell 42.2
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
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
AMD Ryzen 7900 Series Linux CPU Benchmarks 13 Systems - 333 Benchmark Results	Intel Core i5-12600K - ASUS ROG STRIX Z690-E GAMING WIFI - Intel Device 7aa7 Ubuntu 22.04 - 6.0.0-060000rc1daily20220820-generic - GNOME Shell 42.2
Intel 10980XE GCC Compiler Benchmarks Featured Compiler Comparison	Intel Core i9-10980XE - ASRock X299 Steel Legend - Intel Sky Lake-E DMI3 Registers Ubuntu 21.04 - 5.11.0-22-generic - GNOME Shell 3.38.4
Linux Servers AlmaLinux vs. RHEL 9.0 Featured OS Comparison	2 x AMD EPYC 7773X 64-Core - AMD DAYTONA_X - AMD Starship AlmaLinux 9.0 - 5.14.0-70.13.1.el9_0.x86_64 - GNOME Shell 40.9
AMD Ryzen 9 7950X3D Linux Review Benchmarks 5 Systems - 396 Benchmark Results	AMD Ryzen 9 5950X 16-Core - ASUS ROG CROSSHAIR VIII HERO - AMD Starship Ubuntu 23.04 - 6.2.0-060200rc8daily20230213-generic - GNOME Shell 43.2
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
Amazon EC2 Graviton3 Benchmark Comparison 5 Systems - 94 Benchmark Results	AMD EPYC 7R13 - Amazon EC2 c6a.4xlarge - Intel 440FX 82441FX PMC Ubuntu 22.04 - 5.15.0-1004-aws - GCC 11.2.0
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
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
AMD Ryzen 7600X 7700X series extra Featured Processor Comparison	AMD Ryzen 5 7600X 6-Core - ASUS ROG CROSSHAIR X670E HERO - AMD Device 14d8 Ubuntu 22.04 - 6.0.0-060000rc1daily20220820-generic - GNOME Shell 42.2
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