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.

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

Project Site

hmmer.org

Test Created

6 December 2010

Last Updated

11 December 2020

Test Maintainer

Andrew Schofield

Test Type

Processor

Average Install Time

20 Seconds

Average Run Time

32 Seconds

Accolades

200k+ Downloads + 10k+ Public Benchmark Results

Supported Platforms

Public Result UploadsTest Completions*Reported Installs*OpenBenchmarking.orgEventsTimed HMMer Search Popularity Statisticspts/hmmer2011.012011.052011.092012.012012.052012.092013.012013.052013.092014.012014.052014.092015.012015.052015.092016.012016.052016.092017.012017.052017.092018.012018.052018.092019.012019.052019.092020.012020.052020.092021.0112K24K36K48K60K
* 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 Mon, 18 Jan 2021 21:40:53 GMT.

Revision History

pts/hmmer-1.2.2   [View Source]   Fri, 11 Dec 2020 16:35:20 GMT
BSD fix.

pts/hmmer-1.2.1   [View Source]   Fri, 13 Nov 2020 10:22:20 GMT
Add macOS support.

pts/hmmer-1.2.0   [View Source]   Sun, 27 Sep 2020 13:46:44 GMT
Update against HMMer 3.3.1 upstream, other install/build improvements.

pts/hmmer-1.1.2   [View Source]   Sat, 09 Sep 2017 11:45:43 GMT
Update download links

pts/hmmer-1.1.1   [View Source]   Thu, 25 Aug 2016 14:16:23 GMT
Update download links

pts/hmmer-1.1.0   [View Source]   Mon, 06 Dec 2010 14:53:06 GMT
Initial import into OpenBenchmarking.org

Suites Using This Test

C/C++ Compiler Tests

CPU Massive

Scientific Computing

Bioinformatics

HPC - High Performance Computing


Performance Metrics

Analyze Test Configuration:

Timed HMMer Search 3.3.1

Pfam Database Search

OpenBenchmarking.org metrics for this test profile configuration based on 999 public results since 27 September 2020 with the latest data as of 18 January 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
97th
9
87 +/- 7
AMD Ryzen 9 5900X 12-Core
97th
31
90 +/- 9
AMD Ryzen 9 5950X 16-Core
97th
27
91 +/- 9
AMD Ryzen 7 5800X 8-Core
96th
10
94 +/- 1
Intel Core i9-10900K
93rd
9
96 +/- 1
Intel Core i9-9900KS
93rd
6
97
AMD Ryzen 7 3800XT 8-Core
90th
10
100 +/- 3
Intel Core i7-7740K
88th
3
101
Intel Xeon E-2288G
88th
15
101 +/- 2
Intel Core i7-7700K
87th
6
102
AMD Ryzen 3 3300X 4-Core
84th
9
103
Intel Core i9-9900K
84th
9
103
Intel Core i5-10600K
84th
10
103
Intel Core i9-10885H
81st
3
106
AMD Ryzen 5 3600XT 6-Core
81st
6
106 +/- 1
AMD Ryzen 9 3900X 12-Core
81st
15
106 +/- 7
AMD Ryzen 9 3900XT 12-Core
80th
11
107 +/- 5
AMD Ryzen 7 3700X 8-Core
80th
11
107
Intel Core i7-8700B
80th
8
107 +/- 1
Intel Core i7-8086K
77th
6
109
Intel Core i7-8700K
77th
6
109
AMD Ryzen 9 3950X 16-Core
77th
9
109 +/- 10
Intel Core i3-10100
76th
9
110
Mid-Tier
75th
> 110
AMD Ryzen 3 3100 4-Core
74th
6
111
Intel Core i5-7600K
74th
9
111
AMD Ryzen Threadripper 2950X 16-Core
73rd
6
113
Intel Xeon E3-1275 v6
71st
9
114
AMD Ryzen 5 4500U
71st
11
114 +/- 8
AMD Ryzen 7 2700X Eight-Core
69th
4
115 +/- 2
Intel Core i7-8565U
69th
9
115 +/- 3
Intel Core i7-5775C
69th
4
115 +/- 2
Intel Core i7-1165G7
69th
19
115 +/- 34
Intel Core i3-7100
68th
9
116 +/- 1
AMD Ryzen 5 3400G
68th
6
116 +/- 2
Intel Core i7-9750H
66th
10
117
Apple M1
66th
6
117
AMD EPYC 7F32 8-Core
66th
9
117 +/- 1
Intel Xeon E3-1270 v5
63rd
24
118 +/- 1
Intel Core i5-9400F
63rd
9
118
AMD Ryzen 3 1300X
63rd
10
118 +/- 2
Intel Core i7-1065G7
58th
6
120
Intel Core i5-8400
58th
9
120
Intel Core i7-8550U
56th
9
122 +/- 1
Intel Xeon E3-1240 v5
56th
3
122 +/- 1
Intel Core i7-4790K
55th
6
123 +/- 2
Intel Xeon E3-1280 v5
55th
9
123 +/- 1
Intel Core i7-10700T
53rd
4
124
Intel Xeon E3-1260L v5
53rd
6
125 +/- 1
Intel Core i3-8100
52nd
9
126
Intel Xeon E3-1245 v5
52nd
9
126
Median
50th
127
AMD EPYC 7F52 16-Core
49th
9
128 +/- 7
AMD Ryzen 3 3200U
49th
9
128 +/- 4
AMD Ryzen 7 1800X Eight-Core
49th
13
128 +/- 4
Intel Core i7-5600U
48th
6
129
AMD Ryzen 5 2400G
48th
8
129 +/- 8
AMD Ryzen 3 2200G
48th
4
129
AMD Ryzen Threadripper 3970X 32-Core
47th
12
130 +/- 10
Intel Core i9-10980XE
47th
15
130 +/- 11
Intel Core i7-6800K
46th
6
131
Intel Core i7-9700TE
46th
5
131
Intel Core i5-6500
46th
6
131
AMD Ryzen Threadripper 3960X 24-Core
46th
9
131
AMD Ryzen 7 2700 Eight-Core
43rd
9
132 +/- 7
Intel Core i7-7900X
42nd
9
133
Intel Core i9-7960X
42nd
6
133
AMD Ryzen 7 1700 Eight-Core
40th
8
134 +/- 11
AMD EPYC 7262 8-Core
40th
3
136
Intel Core i7-4770K
38th
9
138
Intel Core i5-4670
37th
10
140 +/- 1
Intel Xeon E3-1231 v3
36th
6
141
AMD EPYC 7232P 8-Core
36th
5
142
AMD EPYC 7F72 24-Core
36th
15
142
Intel Core i7-6700HQ
33rd
9
145 +/- 3
AMD EPYC 7252 8-Core
33rd
3
145
Intel Core i7-4960X
33rd
9
146 +/- 2
Intel Core i7-3770K
32nd
3
147
AMD EPYC 7302P 16-Core
31st
6
149 +/- 9
AMD Ryzen Threadripper 2970WX 24-Core
31st
9
150
AMD EPYC 7272 12-Core
31st
3
150
Intel Core i3-4130
29th
10
152
Intel Xeon Platinum 8280
28th
3
154
AMD EPYC 7282 16-Core
28th
5
154
Intel Xeon E3-1235L v5
27th
3
157
Low-Tier
25th
> 162
AMD Ryzen Threadripper 2990WX 32-Core
25th
6
162 +/- 1
Intel Xeon E5-1680 v3
25th
3
163
Intel Core i9-7980XE
25th
10
163 +/- 3
AMD EPYC 7402P 24-Core
24th
5
164
Intel Core i5-3470
24th
6
165 +/- 3
Intel Xeon Silver 4215R
23rd
3
166
Intel Core i7-2700K
22nd
6
168 +/- 1
Intel Core i5-2500K
22nd
9
169 +/- 19
Intel Xeon E5-2687W v3
22nd
6
169 +/- 2
Intel Xeon Gold 6226R
21st
13
170 +/- 7
Intel Xeon Gold 5217
21st
4
170
Intel Core i7-5960X
21st
4
172
AMD EPYC 7352 24-Core
19th
5
173
AMD EPYC 7542 32-Core
19th
4
174
AMD EPYC 7502P 32-Core
17th
5
177
AMD EPYC 7502 32-Core
17th
12
177
AMD EPYC 7452 32-Core
16th
5
178
2 x AMD EPYC 7F72 24-Core
15th
5
182 +/- 9
AMD Ryzen Threadripper 3990X 64-Core
15th
11
183 +/- 14
AMD EPYC 7532 32-Core
15th
5
185
AMD FX-8370 Eight-Core
13th
4
192
Intel Core i5-2520M
12th
3
196 +/- 1
AMD A10-7870K Radeon R7 12 Compute Cores 4C
11th
3
198
AMD EPYC 7601 32-Core
11th
9
200 +/- 1
Intel Xeon Gold 5218
10th
4
204
Intel Xeon Silver 4214R
10th
3
204
Intel Xeon Silver 4216
9th
10
206 +/- 22
AMD A10-7850K APU
9th
3
208
AMD EPYC 7642 48-Core
8th
5
210
AMD EPYC 7552 48-Core
8th
5
210
AMD FX-8150 Eight-Core
8th
4
214 +/- 3
AMD EPYC 7702 64-Core
8th
11
215 +/- 19
2 x Intel Xeon Gold 5220R
6th
10
224
2 x Intel Xeon Platinum 8280
6th
12
224 +/- 2
AMD EPYC 7742 64-Core
5th
3
231
AMD EPYC 7662 64-Core
3rd
5
236
Intel Xeon E5-2609 v4
3rd
8
240
2 x AMD EPYC 7601 32-Core
2nd
7
291 +/- 1
2 x AMD EPYC 7742 64-Core
1st
7
433 +/- 14
OpenBenchmarking.orgDistribution Of Public Results - Pfam Database Search999 Results Range From 76 To 867 Seconds7610413216018821624427230032835638441244046849652455258060863666469272074877680483286088880160240320400

Based on OpenBenchmarking.org data, the selected test / test configuration (Timed HMMer Search 3.3.1 - Pfam Database Search) 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.

OpenBenchmarking.orgMinutesTime Required To Complete BenchmarkPfam Database SearchRun-Time510152025Min: 4 / Avg: 7.19 / Max: 21

Recent Test Results

OpenBenchmarking.org Results Compare

1 System - 5 Benchmark Results

AMD Ryzen 7 3700X 8-Core - ASRock X570 Phantom Gaming-ITX/TB3 - AMD Starship

Ubuntu 20.10 - 5.8.0-38-lowlatency - X Server 1.20.9

2 Systems - 17 Benchmark Results

2 x Intel Celeron J3455 - Intel 440BX - Intel 440BX

Debian 10 - 5.4.78-2-pve - GCC 8.3.0

3 Systems - 125 Benchmark Results

AMD Ryzen 9 5950X 16-Core - ASUS ROG CROSSHAIR VIII HERO - AMD Starship

Ubuntu 20.10 - 5.11.0-051100rc2daily20210108-generic - GNOME Shell 3.38.1

4 Systems - 104 Benchmark Results

AMD Ryzen 5 2400G - MSI B350M GAMING PRO - AMD Raven

Ubuntu 19.10 - 5.3.0-64-generic - GNOME Shell 3.34.1

1 System - 14 Benchmark Results

AMD Ryzen 9 3900X 12-Core - ASUS PRIME X570-PRO - AMD Starship

EndeavourOS rolling - 5.10.6-vd-2.4 - Xfce 4.16

1 System - 14 Benchmark Results

AMD Ryzen 9 3900X 12-Core - ASUS PRIME X570-PRO - AMD Starship

EndeavourOS rolling - 5.10.6-vd-2.1 - Xfce 4.16

1 System - 14 Benchmark Results

AMD Ryzen 9 3900X 12-Core - ASUS PRIME X570-PRO - AMD Starship

EndeavourOS rolling - 5.10.6-vd-2.2 - Xfce 4.16

1 System - 14 Benchmark Results

AMD Ryzen 9 3900X 12-Core - ASUS PRIME X570-PRO - AMD Starship

EndeavourOS rolling - 5.10.6-vd-2.4 - Xfce 4.16

1 System - 14 Benchmark Results

AMD Ryzen 9 3900X 12-Core - ASUS PRIME X570-PRO - AMD Starship

EndeavourOS rolling - 5.10.6-vd-2.2 - Xfce 4.16

1 System - 14 Benchmark Results

AMD Ryzen 9 3900X 12-Core - ASUS PRIME X570-PRO - AMD Starship

EndeavourOS rolling - 5.10.6-vd-2.1 - Xfce 4.16

1 System - 17 Benchmark Results

2 x Intel Celeron J3455 - Intel 440BX - Intel 440BX

Debian 10 - 5.4.78-2-pve - GCC 8.3.0

1 System - 23 Benchmark Results

AMD Ryzen 9 3900X 12-Core - ASUS PRIME X570-PRO - AMD Starship

EndeavourOS rolling - 5.10.6-vd-1 - Xfce 4.16

Most Popular Test Results

OpenBenchmarking.org Results Compare

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

4 Systems - 99 Benchmark Results

VirtualApple - Apple Mac mini - 8GB

macOS 11.0 - 20.1.0 - OpenCL 1.2

3 Systems - 40 Benchmark Results

2 x Intel Xeon Gold 5220R - TYAN S7106 - Intel Sky Lake-E DMI3 Registers

Ubuntu 20.04 - 5.9.0-050900rc6-generic - GNOME Shell 3.36.4

2 Systems - 403 Benchmark Results

Intel Core i9-10900K - Gigabyte Z490 AORUS MASTER - Intel Comet Lake PCH

Ubuntu 20.10 - 5.8.0-22-generic - GNOME Shell 3.38.0

3 Systems - 406 Benchmark Results

AMD Ryzen 9 3900XT 12-Core - MSI MEG X570 GODLIKE - AMD Starship

Ubuntu 20.04 - 5.4.0-48-generic - GNOME Shell 3.36.4

3 Systems - 131 Benchmark Results

Intel Core i5-10600K - ASUS PRIME Z490M-PLUS - Intel Comet Lake PCH

Ubuntu 20.04 - 5.8.14-050814-generic - GNOME Shell 3.36.4

3 Systems - 31 Benchmark Results

AMD Ryzen 5 3600XT 6-Core - MSI X470 GAMING M7 AC - AMD Starship

Ubuntu 20.04 - 5.8.0-050800-generic - GNOME Shell 3.36.4

3 Systems - 202 Benchmark Results

Intel Core i7-7700K - MSI Z270-A PRO - Intel Xeon E3-1200 v6

Ubuntu 20.04 - 5.9.0-050900rc8daily20201011-generic - GNOME Shell 3.36.4

3 Systems - 100 Benchmark Results

AMD Ryzen Threadripper 3990X 64-Core - System76 Thelio Major - AMD Starship

Ubuntu 20.04 - 5.4.0-47-generic - GNOME Shell 3.36.4

5 Systems - 99 Benchmark Results

Intel Core i7-1165G7 - Dell 0GG9PT - Intel Tiger Lake-LP

Ubuntu 20.10 - 5.9.2-050902-generic - GNOME Shell 3.38.1

3 Systems - 32 Benchmark Results

AMD Ryzen 9 3900X 12-Core - ASUS TUF GAMING X570-PLUS - AMD Starship

Ubuntu 20.04 - 5.9.0-050900rc6daily20200922-generic - GNOME Shell 3.36.4

4 Systems - 99 Benchmark Results

Intel Core i7-1165G7 - Dell 0GG9PT - Intel Device a0ef

Ubuntu 20.04 - 5.6.0-1031-oem - GNOME Shell 3.36.4
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