Publication detail

Adaptive Execution Planning in Biomedical Workflow Management Systems

JAROŠ, M. TREEBY, B. JAROŠ, J.

Original Title

Adaptive Execution Planning in Biomedical Workflow Management Systems

Type

presentation, poster

Language

English

Original Abstract

Workflow management systems try to move grid, cloud and high performance computing (HPC) services closer to scientific and industrial community by providing a user-friendly interface enabling definition of complex problems presented as workflows. Workflows provide a formal way to define and automate multi-step procedures reflecting real-world phenomena. However, this still places demands on users to decide how to execute particular tasks in workflows. k-Dispatch, a platform providing automated tasks execution, planning and monitoring, focuses on selected workflows from medical environment. For security reasons, only in-house code binaries tuned for specific HPC resources are used. k-Dispatch screens out users from the complexity of HPC systems. This paper describes how the presented framework deals with the task execution planning. Static planning that uses default execution parameters may not be sufficient for the effective execution since the results delivery is time-constrained, and there is an effort to minimize the computational cost. Adaptive planning discussed in this paper may improve this process.

Keywords

Workflow management system, Performance data collection, Interpolation, Job scheduling, HPC as a service 

Authors

JAROŠ, M.; TREEBY, B.; JAROŠ, J.

Released

5. 7. 2021

Location

Geneva

Pages count

1

URL

https://www.fit.vut.cz/research/publication/12258/

BibTex

@misc{BUT176467,
  author="Marta {Jaroš} and Bradley {Treeby} and Jiří {Jaroš}",
  title="Adaptive Execution Planning in Biomedical Workflow Management Systems",
  booktitle="The Platform for Advanced Scientific Computing (PASC) Conference 2021",
  year="2021",
  pages="1",
  address="Geneva",
  url="https://www.fit.vut.cz/research/publication/12258/",
  note="presentation, poster"
}

Documents

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poster.mp4
poster.pdf