MPI+OpenMP tasking scalability for the simulation of the human brain
Document typeConference report
PublisherAssociation for Computing Machinery (ACM)
Rights accessOpen Access
The simulation of the behavior of the Human Brain is one of the most ambitious challenges today with a non-end of important applications. We can find many different initiatives in the USA, Europe and Japan which attempt to achieve such a challenging target. In this work we focus on the most important European initiative (Human Brain Project) and on one of the tools (Arbor). This tool simulates the spikes triggered in a neuronal network by computing the voltage capacitance on the neurons' morphology, being one of the most precise simulators today. In the present work, we have evaluated the use of MPI+OpenMP tasking on top of the Arbor simulator. In this paper, we present the main characteristics of the Arbor tool and how these can be efficiently managed by using MPI+OpenMP tasking. We prove that this approach is able to achieve a good scaling even when computing a relatively low workload (number of neurons) per node using up to 32 nodes. Our target consists of achieving not only a highly scalable implementation based on MPI, but also to develop a tool with a high degree of abstraction without losing control and performance by using MPI+OpenMP tasking.
CitationValero-Lara, P., Sirvent, R., Pena, A., Martorell, X., Labarta, J. MPI+OpenMP tasking scalability for the simulation of the human brain. A: European MPI Users' Group Meeting. "EuroMPI 2018: proceedings of the 25th European MPI Users’ Group Meeting: Barcelona, Spain: September 23-26, 2018". New York: Association for Computing Machinery (ACM), 2018, p. 1-8.