SC is the International Conference for
 High Performnance Computing, Networking, Storage and Analysis

SCHEDULE: NOV 13-19, 2010

A Multi-Scale Heart Simulation on Massively Parallel Computers

SESSION: Large-Scale Stencil Computations


TIME: 1:30PM - 2:00PM

SESSION CHAIR: Kengo Nakajima

AUTHOR(S):Akira Hosoi, Takumi Washio, Jun-ichi Okada, Yoshimasa Kadooka, Kengo Nakajima, Toshiaki Hisada


To understand the macroscopic function of the human heart based on sub-cellular microscopic events, multi-scale analysis is indispensable. Our heart simulator uses the so-called homogenization method, where both the human heart and the myocardial cells are modeled and solved simultaneously by the finite element method. Because the contraction and deformation of each finite element in the heart model are governed by their respective cell model, the NDOF of all the cells becomes prohibitively large. Furthermore, the phenomena are highly nonlinear and transient. This challenging problem has been tackled by our group for many years, and a novel algorithm to accelerate the computation was implemented in the code. We have recently tested its performance using the T2K Open Supercomputer (Tokyo). A pulsation of the heart with a total NDOF of 160 million was successfully simulated using 6144 CPU cores in ten hours. Scalability and other computational performances were measured and are discussed.

Chair/Author Details:

Kengo Nakajima (Chair) - University of Tokyo

Akira Hosoi - Fujitsu

Takumi Washio - University of Tokyo

Jun-ichi Okada - University of Tokyo

Yoshimasa Kadooka - Fujitsu

Kengo Nakajima - University of Tokyo

Toshiaki Hisada - University of Tokyo

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The full paper can be found in the ACM Digital Library and IEEE Computer Society

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