Constructing a GPU cluster platform based on multiple NVIDIA Jetson TK1

Kuan Yu Yeh; Hui Jun Cheng; Jin Ye; Jyh Da Wei; Chun Yuan Lin

doi:10.1109/BIBM.2016.7822647

Constructing a GPU cluster platform based on multiple NVIDIA Jetson TK1

Kuan Yu Yeh, Hui Jun Cheng, Jin Ye, Jyh Da Wei, Chun Yuan Lin^*

^*Corresponding author for this work

Chang Gung University

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

4 Scopus citations

Abstract

High-end graphics processing units (GPUs), such as NVIDIA Fermi/Tesla series cards, are widely applied to the high performance computing fields in a decade. NVIDIA releases Tegra K1, called Jetson TK1, which contains 4 ARM Cortex-A15 CPUs and 192 CUDA cores (Kepler GPU) is an embedded board with low cost, low power consumption, and high applicability advantages for several specific applications. In the previous work, we have constructed a bioinformatics platform based on single NVIDIA Jetson TK1, and ClustalWtk tool for multiple sequence alignments was designed on this platform. With more and more biological sequences generated and high computing power requirement, it is necessary to construct a cluster platform based on multiple NVIDIA Jetson TK1. In this paper, a bioinformatics platform based on a cluster of multiple NVIDIA Jetson TK1 is constructed. Besides, two job assignment modes are proposed in this platform: one is a 'user selected' mode and another is an 'automatic assigned' mode. ClustalWtk tool also is ported on this platform with these two modes, respectively.

Original language	English
Title of host publication	Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016
Editors	Kevin Burrage, Qian Zhu, Yunlong Liu, Tianhai Tian, Yadong Wang, Xiaohua Tony Hu, Qinghua Jiang, Jiangning Song, Shinichi Morishita, Kevin Burrage, Guohua Wang
Publisher	Institute of Electrical and Electronics Engineers Inc.
Pages	917-922
Number of pages	6
ISBN (Electronic)	9781509016105
DOIs	https://doi.org/10.1109/BIBM.2016.7822647
State	Published - 17 01 2017
Event	2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016 - Shenzhen, China Duration: 15 12 2016 → 18 12 2016

Publication series

Name	Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016

Conference

Conference	2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016
Country/Territory	China
City	Shenzhen
Period	15/12/16 → 18/12/16

Bibliographical note

Publisher Copyright:
© 2016 IEEE.

Keywords

CUDA
Cluster
Multiple Sequence Alignment
NVIDIA Jetson TK1
Parallel Processing

Access to Document

10.1109/BIBM.2016.7822647

Cite this

Yeh, K. Y., Cheng, H. J., Ye, J., Wei, J. D., & Lin, C. Y. (2017). Constructing a GPU cluster platform based on multiple NVIDIA Jetson TK1. In K. Burrage, Q. Zhu, Y. Liu, T. Tian, Y. Wang, X. T. Hu, Q. Jiang, J. Song, S. Morishita, K. Burrage, & G. Wang (Eds.), Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016 (pp. 917-922). Article 7822647 (Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/BIBM.2016.7822647

Yeh, Kuan Yu ; Cheng, Hui Jun ; Ye, Jin et al. / Constructing a GPU cluster platform based on multiple NVIDIA Jetson TK1. Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016. editor / Kevin Burrage ; Qian Zhu ; Yunlong Liu ; Tianhai Tian ; Yadong Wang ; Xiaohua Tony Hu ; Qinghua Jiang ; Jiangning Song ; Shinichi Morishita ; Kevin Burrage ; Guohua Wang. Institute of Electrical and Electronics Engineers Inc., 2017. pp. 917-922 (Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016).

@inproceedings{1212890fb14b4c3c87d94abc2c104db9,

title = "Constructing a GPU cluster platform based on multiple NVIDIA Jetson TK1",

abstract = "High-end graphics processing units (GPUs), such as NVIDIA Fermi/Tesla series cards, are widely applied to the high performance computing fields in a decade. NVIDIA releases Tegra K1, called Jetson TK1, which contains 4 ARM Cortex-A15 CPUs and 192 CUDA cores (Kepler GPU) is an embedded board with low cost, low power consumption, and high applicability advantages for several specific applications. In the previous work, we have constructed a bioinformatics platform based on single NVIDIA Jetson TK1, and ClustalWtk tool for multiple sequence alignments was designed on this platform. With more and more biological sequences generated and high computing power requirement, it is necessary to construct a cluster platform based on multiple NVIDIA Jetson TK1. In this paper, a bioinformatics platform based on a cluster of multiple NVIDIA Jetson TK1 is constructed. Besides, two job assignment modes are proposed in this platform: one is a 'user selected' mode and another is an 'automatic assigned' mode. ClustalWtk tool also is ported on this platform with these two modes, respectively.",

keywords = "CUDA, Cluster, Multiple Sequence Alignment, NVIDIA Jetson TK1, Parallel Processing",

author = "Yeh, {Kuan Yu} and Cheng, {Hui Jun} and Jin Ye and Wei, {Jyh Da} and Lin, {Chun Yuan}",

note = "Publisher Copyright: {\textcopyright} 2016 IEEE.; 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016 ; Conference date: 15-12-2016 Through 18-12-2016",

year = "2017",

month = jan,

day = "17",

doi = "10.1109/BIBM.2016.7822647",

language = "英语",

series = "Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016",

publisher = "Institute of Electrical and Electronics Engineers Inc.",

pages = "917--922",

editor = "Kevin Burrage and Qian Zhu and Yunlong Liu and Tianhai Tian and Yadong Wang and Hu, {Xiaohua Tony} and Qinghua Jiang and Jiangning Song and Shinichi Morishita and Kevin Burrage and Guohua Wang",

booktitle = "Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016",

address = "美国",

}

Yeh, KY, Cheng, HJ, Ye, J, Wei, JD & Lin, CY 2017, Constructing a GPU cluster platform based on multiple NVIDIA Jetson TK1. in K Burrage, Q Zhu, Y Liu, T Tian, Y Wang, XT Hu, Q Jiang, J Song, S Morishita, K Burrage & G Wang (eds), Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016., 7822647, Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016, Institute of Electrical and Electronics Engineers Inc., pp. 917-922, 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016, Shenzhen, China, 15/12/16. https://doi.org/10.1109/BIBM.2016.7822647

Constructing a GPU cluster platform based on multiple NVIDIA Jetson TK1. / Yeh, Kuan Yu; Cheng, Hui Jun; Ye, Jin et al.
Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016. ed. / Kevin Burrage; Qian Zhu; Yunlong Liu; Tianhai Tian; Yadong Wang; Xiaohua Tony Hu; Qinghua Jiang; Jiangning Song; Shinichi Morishita; Kevin Burrage; Guohua Wang. Institute of Electrical and Electronics Engineers Inc., 2017. p. 917-922 7822647 (Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

TY - GEN

T1 - Constructing a GPU cluster platform based on multiple NVIDIA Jetson TK1

AU - Yeh, Kuan Yu

AU - Cheng, Hui Jun

AU - Ye, Jin

AU - Wei, Jyh Da

AU - Lin, Chun Yuan

PY - 2017/1/17

Y1 - 2017/1/17

N2 - High-end graphics processing units (GPUs), such as NVIDIA Fermi/Tesla series cards, are widely applied to the high performance computing fields in a decade. NVIDIA releases Tegra K1, called Jetson TK1, which contains 4 ARM Cortex-A15 CPUs and 192 CUDA cores (Kepler GPU) is an embedded board with low cost, low power consumption, and high applicability advantages for several specific applications. In the previous work, we have constructed a bioinformatics platform based on single NVIDIA Jetson TK1, and ClustalWtk tool for multiple sequence alignments was designed on this platform. With more and more biological sequences generated and high computing power requirement, it is necessary to construct a cluster platform based on multiple NVIDIA Jetson TK1. In this paper, a bioinformatics platform based on a cluster of multiple NVIDIA Jetson TK1 is constructed. Besides, two job assignment modes are proposed in this platform: one is a 'user selected' mode and another is an 'automatic assigned' mode. ClustalWtk tool also is ported on this platform with these two modes, respectively.

AB - High-end graphics processing units (GPUs), such as NVIDIA Fermi/Tesla series cards, are widely applied to the high performance computing fields in a decade. NVIDIA releases Tegra K1, called Jetson TK1, which contains 4 ARM Cortex-A15 CPUs and 192 CUDA cores (Kepler GPU) is an embedded board with low cost, low power consumption, and high applicability advantages for several specific applications. In the previous work, we have constructed a bioinformatics platform based on single NVIDIA Jetson TK1, and ClustalWtk tool for multiple sequence alignments was designed on this platform. With more and more biological sequences generated and high computing power requirement, it is necessary to construct a cluster platform based on multiple NVIDIA Jetson TK1. In this paper, a bioinformatics platform based on a cluster of multiple NVIDIA Jetson TK1 is constructed. Besides, two job assignment modes are proposed in this platform: one is a 'user selected' mode and another is an 'automatic assigned' mode. ClustalWtk tool also is ported on this platform with these two modes, respectively.

KW - CUDA

KW - Cluster

KW - Multiple Sequence Alignment

KW - NVIDIA Jetson TK1

KW - Parallel Processing

UR - http://www.scopus.com/inward/record.url?scp=85013321974&partnerID=8YFLogxK

U2 - 10.1109/BIBM.2016.7822647

DO - 10.1109/BIBM.2016.7822647

M3 - 会议稿件

AN - SCOPUS:85013321974

T3 - Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016

SP - 917

EP - 922

BT - Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016

A2 - Burrage, Kevin

A2 - Zhu, Qian

A2 - Liu, Yunlong

A2 - Tian, Tianhai

A2 - Wang, Yadong

A2 - Hu, Xiaohua Tony

A2 - Jiang, Qinghua

A2 - Song, Jiangning

A2 - Morishita, Shinichi

A2 - Burrage, Kevin

A2 - Wang, Guohua

PB - Institute of Electrical and Electronics Engineers Inc.

T2 - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016

Y2 - 15 December 2016 through 18 December 2016

ER -

Yeh KY, Cheng HJ, Ye J, Wei JD, Lin CY. Constructing a GPU cluster platform based on multiple NVIDIA Jetson TK1. In Burrage K, Zhu Q, Liu Y, Tian T, Wang Y, Hu XT, Jiang Q, Song J, Morishita S, Burrage K, Wang G, editors, Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016. Institute of Electrical and Electronics Engineers Inc. 2017. p. 917-922. 7822647. (Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016). doi: 10.1109/BIBM.2016.7822647

Constructing a GPU cluster platform based on multiple NVIDIA Jetson TK1

Abstract

Publication series

Conference

Bibliographical note

Keywords

Access to Document

Other files and links

Fingerprint

Cite this