Computational Fluid and Particle Dynamics Simulations for Respiratory System: Runtime Optimization on an Arm Cluster

Document typeConference lecture
Defense date2018-08-13
PublisherAssociation for Computing Machinery (ACM)
Rights accessOpen Access
ProjectCOMPUTACION DE ALTAS PRESTACIONES VII (MINECO-TIN2015-65316-P)
MONT-BLANC - Mont-Blanc, European scalable and power efficient HPC platform based on low-power embedded technology (EC-FP7-288777)
MONT-BLANC 2 - Mont-Blanc 2, European scalable and power efficient HPC platform based on low-power embedded technology (EC-FP7-610402)
Mont-Blanc 3 - Mont-Blanc 3, European scalable and power efficient HPC platform based on low-power embedded technology (EC-H2020-671697)
MONT-BLANC - Mont-Blanc, European scalable and power efficient HPC platform based on low-power embedded technology (EC-FP7-288777)
MONT-BLANC 2 - Mont-Blanc 2, European scalable and power efficient HPC platform based on low-power embedded technology (EC-FP7-610402)
Mont-Blanc 3 - Mont-Blanc 3, European scalable and power efficient HPC platform based on low-power embedded technology (EC-H2020-671697)
Abstract
Computational fluid and particle dynamics simulations (CFPD) are of paramount importance for studying and improving drug effectiveness. Computational requirements of CFPD codes involves high-performance computing (HPC) resources. For these reasons we introduce and evaluate in this paper system software techniques for improving performance and tolerate load imbalance on a state-of-the-art production CFPD code. We demonstrate benefits of these techniques on both Intel- and Arm-based HPC clusters showing the importance of using mechanisms applied at runtime to improve the performance independently of the underlying architecture. We run a real CFPD simulation of particle tracking on the human respiratory system, showing performance improvements of up to 2X, keeping the computational resources constant.
CitationGarcia-Gasulla, M. [et al.]. Computational Fluid and Particle Dynamics Simulations for Respiratory System: Runtime Optimization on an Arm Cluster. A: "ICPP '18 Proceedings of the 47th International Conference on Parallel Processing Companion". Association for Computing Machinery (ACM), 2018.
ISBN978-1-4503-6523-9
Publisher versionhttps://dl.acm.org/citation.cfm?id=3229736
Collections
Files | Description | Size | Format | View |
---|---|---|---|---|
Computational F ... namics Simulations for.pdf | 3,081Mb | View/Open |
All rights reserved. This work is protected by the corresponding intellectual and industrial
property rights. Without prejudice to any existing legal exemptions, reproduction, distribution, public
communication or transformation of this work are prohibited without permission of the copyright holder