AutoPas in ls1 mardyn: Massively parallel particle simulations with node-level auto-tuning
Publication date
2021-03
Document type
Research article
Author
Organisational unit
Scopus ID
Series or journal
Journal of computational science
ISSN
Periodical volume
50
Peer-reviewed
✅
Part of the university bibliography
✅
Language
English
Abstract
Due to computational cost, simulation software is confronted with the need to always use optimal building blocks — data structures, solver algorithms, parallelization schemes, and so forth — in terms of efficiency, while it typically needs to support a variety of hardware architectures. AutoPas implements the computationally most expensive molecular dynamics (MD) steps (e.g., force calculation) and chooses on-the-fly, i.e., at run time, the optimal combination of the previously mentioned building blocks. We detail decisions made in AutoPas to enable the interplay with MPI-parallel simulations and, to our knowledge, showcase the first MPI-parallel MD simulations that use dynamic tuning. We discuss the benefits of this approach for three simulation scenarios from process engineering, in which we obtain performance improvements of up to 50%, compared to the baseline performance of the highly optimized ls1 mardyn software.
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