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Performance and Accuracy Analysis of Nonlinear k-Wave Simulations Using Local Domain Decomposition with an 8-GPU Server

TREEBY Bradley E., VAVERKA Filip and JAROŠ Jiří. Performance and Accuracy Analysis of Nonlinear k-Wave Simulations Using Local Domain Decomposition with an 8-GPU Server. Proceedings of Meetings on Acoustics, vol. 34, no. 022002, pp. 1-5. ISSN 1939-800X. Available from: https://asa.scitation.org/doi/10.1121/2.0000883
Czech title
Analýza výkonnosti a přesnosti nelineárních simulací k-Wave na 8-GPU serveru
Type
journal article
Language
english
Authors
Treeby Bradley E. (UCL)
Vaverka Filip, Ing. (DCSY FIT BUT)
Jaroš Jiří, doc. Ing., Ph.D. (DCSY FIT BUT)
URL
Keywords
k-Wave, Local domain decomposition, Fourier Basis, pseudospectral methods
Abstract

Large-scale nonlinear ultrasound simulations using the open-source k-Wave toolbox are now routinely performed using the MPI version of k-Wave running on traditional CPU-based clusters. However, the allto-all communications required by the 3D fast Fourier transform (FFT) severely impact performance when scaling to large numbers of compute cores. This can be overcome by using a domain decomposition strategy based on a local Fourier basis. In this work, we analyse the performance and accuracy of using local domain decomposition for running a high-intensity focused ultrasound (HIFU) simulation in the kidney on a single server containing eight NVIDIA P40 graphical processing units (GPUs). Different decompositions and overlap sizes are investigated and compared to a global MPI simulation running on a CPU-based supercomputer using 1280 cores. For a grid size of 960 × 960 × 1280 grid points and an overlap size of 4 grid points, the error in the simulation using local domain decomposition is on the order of 0.1% compared to the global simulation, which is sufficient for most applications. The financial cost for running the simulation is also reduced by more than an order of magnitude.
Published
2018
Pages
1-5
Journal
Proceedings of Meetings on Acoustics, vol. 34, no. 22002, ISSN 1939-800X
Publisher
American Institute of Physics for the Acoustical Society of America
DOI
BibTeX
@ARTICLE{FITPUB11779,
   author = "E. Bradley Treeby and Filip Vaverka and Ji\v{r}\'{i} Jaro\v{s}",
   title = "Performance and Accuracy Analysis of Nonlinear k-Wave Simulations Using Local Domain Decomposition with an 8-GPU Server",
   pages = "1--5",
   journal = "Proceedings of Meetings on Acoustics",
   volume = 34,
   number = 022002,
   year = 2018,
   ISSN = "1939-800X",
   doi = "10.1121/2.0000883",
   language = "english",
   url = "https://www.fit.vut.cz/research/publication/11779"
}
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