Self-deployed execution environment for high performance computing

Mingtian SHAO; Kai LU; Wenzhe ZHANG

doi:10.1631/FITEE.2100016

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Self-deployed execution environment for high performance computing

Regular Papers | Updated：2022-07-11

- Self-deployed execution environment for high performance computing
- 面向高性能计算的自部署运行环境
- Frontiers of Information Technology & Electronic Engineering Vol. 23, Issue 6, Pages: 845-857(2022)
- Affiliations：
  
  College of Computer, National University of Defense Technology, Changsha410073, China
- Author bio：
  
  E-mail: shaomt@nudt.edu.cn;
  ‡Corresponding author
  E-mail: zhangwenzhe@nudt.edu.cn
- Funds：
- DOI：10.1631/FITEE.2100016
  CLC： TP315
- Received：09 January 2021，
  
  Accepted：14 February 2021，
  
  Published Online：04 March 2022，
  
  Published：0 June 2022
- Accepted：
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Mingtian SHAO, Kai LU, Wenzhe ZHANG. Self-deployed execution environment for high performance computing[J]. Frontiers of Information Technology & Electronic Engineering, 2022, 23(6): 845-857.
DOI：

Mingtian SHAO, Kai LU, Wenzhe ZHANG. Self-deployed execution environment for high performance computing[J]. Frontiers of Information Technology & Electronic Engineering, 2022, 23(6): 845-857. DOI： 10.1631/FITEE.2100016.

摘要

传统高性能计算系统提供了标准的预置环境来支持科学计算。然而，高性能计算的发展需要为越来越多应用提供支持，如人工智能、大数据等。标准的预设环境已无法满足这些多样化的要求。如果用户仍然在高性能计算系统上运行这些新兴应用程序，他们需要手动维护应用程序的特定依赖项（库、环境变量等），这增加了用户的开发和部署负担。此外，多用户模式也带来用户之间的隐私问题。像Docker和Singularity这样的容器可以封装作业的执行环境，但是在高度定制的高性能计算系统中，Docker和Singularity的跨环境应用部署是受限的。容器镜像的引入也给系统管理员增加了维护负担。针对上述问题，本文提出一种适用于高性能计算的自部署执行环境（SDEE）。SDEE结合了传统虚拟化和现代容器的优点，为用户提供了一个独立、可定制的环境（类似于虚拟机）。该用户是此环境中的根用户。用户开发和调试应用程序，并在此环境中部署其特殊的依赖项，然后可以通过传统高性能计算系统的作业管理系统，直接将作业加载到计算节点。作业及其依赖项将被自动分析、打包、部署和执行。该过程实现了透明、快速的作业部署，不仅减轻了用户负担，而且保护了用户隐私。实验表明，SDEE引入的开销可忽略不计，比Docker和Singularity都要低。

Abstract

Traditional high performance computing (HPC) systems provide a standard preset environment to support scientific computation. However

HPC development needs to provide support for more and more diverse applications

such as artificial intelligence and big data. The standard preset environment can no longer meet these diverse requirements. If users still run these emerging applications on HPC systems

they need to manually maintain the specific dependencies (libraries

environment variables

and so on) of their applications. This increases the development and deployment burden for users. Moreover

the multi-user mode brings about privacy problems among users. Containers like Docker and Singularity can encapsulate the job's execution environment

but in a highly customized HPC system

cross-environment application deployment of Docker and Singularity is limited. The introduction of container images also imposes a maintenance burden on system administrators. Facing the above-mentioned problems

in this paper we propose a self-deployed execution environment (SDEE) for HPC. SDEE combines the advantages of traditional virtualization and modern containers. SDEE provides an isolated and customizable environment (similar to a virtual machine) to the user. The user is the root user in this environment. The user develops and debugs the application and deploys its special dependencies in this environment. Then the user can load the job to compute nodes directly through the traditional HPC job management system. The job and its dependencies are analyzed

packaged

deployed

and executed automatically. This process enables transparent and rapid job deployment

which not only reduces the burden on users

but also protects user privacy. Experiments show that the overhead introduced by SDEE is negligible and lower than those of both Docker and Singularity.

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