Treeby, BE;
Vaverka, F;
Jaros, J;
(2018)
Performance and accuracy analysis of nonlinear k-Wave simulations using local domain decomposition with an 8-GPU server.
In:
Proceedings of the 21st International Symposium on Nonlinear Acoustics.
(pp. 022002).
Acoustical Society of America: Santa Fe, Mexico, USA.
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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 all-to-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 analyze 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 by 960 by 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.
| Type: | Proceedings paper |
|---|---|
| Title: | Performance and accuracy analysis of nonlinear k-Wave simulations using local domain decomposition with an 8-GPU server |
| Event: | 21st International Symposium on Nonlinear Acoustics |
| Open access status: | An open access version is available from UCL Discovery |
| DOI: | 10.1121/2.0000883 |
| Publisher version: | https://doi.org/10.1121/2.0000883 |
| Language: | English |
| Additional information: | This version is the version of record. For information on re-use, please refer to the publisher’s terms and conditions. |
| UCL classification: | UCL UCL > Provost and Vice Provost Offices > UCL BEAMS UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Engineering Science UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Engineering Science > Dept of Med Phys and Biomedical Eng |
| URI: | https://discovery.ucl.ac.uk/id/eprint/10061757 |
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