Long-time Simulation of Calcium Induced Calcium Release in a Heart Cell using the Finite Element Method on a Hybrid CPU/GPU Node

摘要

A mathematical model of Calcium Induced Calcium Release in a heart cell has been developed that consists of three coupled non-linear advection-diffusion-reaction equations. A program in C with MPI based on matrix-free Newton-Krylov method gives very good scalability, but still requires large run times for fine meshes. A programming model with CUDA and MPI that utilizes GPUs on a hybrid node can significantly reduce the wall clock time. This paper reports initial results that demonstrate speedup using a hybrid node with two GPUs over the best results on a CPU node.