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European Medical and Biological Engineering Conference

EMBEC 2020: 8th European Medical and Biological Engineering Conference pp 57–65Cite as

A Web-Based Service Portal to Steer Numerical Simulations on High-Performance Computers

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Part of the IFMBE Proceedings book series (IFMBE,volume 80)

Abstract

Benefiting and accessing high-performance computing resources can be quite difficult. Unlike domain scientists with a background in computational science, non-experts coming from, e.g., various medical fields, have almost no chance to run numerical simulations on large-scale systems. To provide easy access and a user-friendly interface to supercomputers, a web-based service portal, which under the hood takes care of authentication, authorization, job submission, and interaction with a simulation framework is presented. The service is exemplary developed around a simulation framework capable of efficiently running computational fluid dynamics simulations on high-performance computers. The framework uses a lattice-Boltzmann method to simulate and analyze respiratory flows. The implementation of such a web-portal allows to steer the simulation and represents a new diagnostic tool in the field of ear, nose, and throat treatment.

Keywords

  • High-performance computing
  • Service portal
  • Computational fluid dynamics
  • Respiratory flows
  • Lattice-boltzmann method

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  • DOI: 10.1007/978-3-030-64610-3_8
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Fig. 1.
Fig. 2.

Notes

  1. 1.

    Laravel https://laravel.com/.

  2. 2.

    CakePHP https://cakephp.org/.

  3. 3.

    Node.js https://nodejs.org/en/.

  4. 4.

    Express https://expressjs.com/.

  5. 5.

    Ruby on Rails https://rubyonrails.org/.

  6. 6.

    Spring https://spring.io/.

  7. 7.

    Google Web Toolkit http://www.gwtproject.org/.

  8. 8.

    Django https://www.djangoproject.com/.

  9. 9.

    Flask https://www.palletsprojects.com/p/flask/.

  10. 10.

    dicom-upload https://pypi.org/project/dicom-upload.

  11. 11.

    SLURM Workload Manager https://slurm.schedmd.com.

  12. 12.

    The scheduler manages the resources on an HPC system and takes care of priorities and job execution.

  13. 13.

    ParaView/Catalyst https://www.paraview.org/insitu.

  14. 14.

    pvlink https://pypi.org/project/pvlink.

  15. 15.

    JupyterLab https://jupyterlab.readthedocs.io.

  16. 16.

    JupyterHub https://jupyterhub.readthedocs.io.

  17. 17.

    Unity IdM https://www.unity-idm.eu/.

  18. 18.

    voilà https://voila.readthedocs.io.

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Acknowledgment

The work presented in this manuscript has been performed within the project Rhinodiagnost, which is funded as a ZIM (Zentrales Innovationsprogramm Mittelstand - Central Innovation Programme for small and medium-sized enterprises) (ZIM https://www.zim.de/ZIM/Navigation/DE/Meta/Englisch/englisch.html) project by the Federal Ministry for Economic Affairs and Energy (BMWi) (BMWi https://www.bmwi.de/Navigation/EN/Home/home.html) in Germany. The Austrian partner Angewandte Informationstechnik Forschungsgesellschaft mbH is funded by COIN (Cooperation and Innovation) (COIN https://www.ffg.at/coin-cooperation-innovation), Federal Ministry of Science, Research and Economy (BMWFW) (BMWFW https://www.bmbwf.gv.at/en.html). The project runs under the auspices of IraSME (International research activities by SMEs) (IraSME https://www.ira-sme.net).

Author information

Authors and Affiliations

  1. Jülich Supercomputing Centre, Forschungszentrum Jülich GmbH, Wilhelm-Johnen-Straße, 52425, Júlich, Germany

    Alice Grosch, Jens Henrik Göbbert & Andreas Lintermann

  2. Institute of Aerodynamics and Chair of Fluid Mechanics, RWTH Aachen University, Wüllnerstr. 5a, 52062, Aachen, Germany

    Moritz Waldmann

  3. JARA Center for Simulation and Data Science, Seffenter Weg 23, 52074, Aachen, Germany

    Moritz Waldmann & Andreas Lintermann

Authors
  1. Alice Grosch
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  2. Moritz Waldmann
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  3. Jens Henrik Göbbert
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  4. Andreas Lintermann
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Corresponding author

Correspondence to Alice Grosch .

Editor information

Editors and Affiliations

  1. Faculty of Electrical Engineering, University of Ljubljana, Ljubljana, Slovenia

    Prof. Tomaz Jarm

  2. Faculty of Electrical Engineering, University of Ljubljana, Ljubljana, Slovenia

    Aleksandra Cvetkoska

  3. Faculty of Electrical Engineering, University of Ljubljana, Ljubljana, Slovenia

    Samo Mahnič-Kalamiza

  4. Faculty of Electrical Engineering, University of Ljubljana, Ljubljana, Slovenia

    Prof. Damijan Miklavcic

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Grosch, A., Waldmann, M., Göbbert, J.H., Lintermann, A. (2021). A Web-Based Service Portal to Steer Numerical Simulations on High-Performance Computers. In: Jarm, T., Cvetkoska, A., Mahnič-Kalamiza, S., Miklavcic, D. (eds) 8th European Medical and Biological Engineering Conference. EMBEC 2020. IFMBE Proceedings, vol 80. Springer, Cham. https://doi.org/10.1007/978-3-030-64610-3_8

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  • DOI: https://doi.org/10.1007/978-3-030-64610-3_8

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