BrainFrame: A node-level heterogeneous accelerator platform for neuron simulations

Objective: The advent of High-Performance Computing (HPC) in recent years has led to its increasing use in brain study through computational models. The scale and complexity of such models are constantly increasing, leading to challenging computational requirements. Even though modern HPC platforms can often deal with such challenges, the vast diversity of the modeling field does not permit for a single acceleration (or homogeneous) platform to effectively address the complete array of modeling requirements. Approach: In this paper we propose and build BrainFrame, a heterogeneous acceleration platform, incorporating three distinct acceleration technologies, a Dataflow Engine, a Xeon Phi and a GP-GPU. The PyNN framework is also integrated into the platform. As a challenging proof of concept, we analyze the performance of BrainFrame on different instances of a state-of-the-art neuron model, modeling the Inferior- Olivary Nucleus using a biophysically-meaningful, extended Hodgkin-Huxley representation. The model instances take into account not only the neuronal- network dimensions but also different network-connectivity circumstances that can drastically change application workload characteristics. Main results: The synthetic approach of three HPC technologies demonstrated that BrainFrame is better able to cope with the modeling diversity encountered. Our performance analysis shows clearly that the model directly affect performance and all three technologies are required to cope with all the model use cases.Comment: 16 pages, 18 figures, 5 table

Introduction to Longitudinal Beam Dynamics

This chapter gives an overview of the longitudinal dynamics of the particles in an accelerator and, closely related to that, the issue of synchronization between the particles and the accelerating field. Beginning with the trivial case of electrostatic accelerators, the synchronization condition is explained for a number of driven accelerators like Alvarez linacs, cyclotrons and finally synchrotrons and storage rings, where it plays a crucial role. In the case of the latter, the principle of phase focusing is motivated qualitatively as well as on a mathematically more correct level and the problem of operation below and above the transition energy is discussed. Throughout, the main emphasis is more on physical understanding rather than on a mathematically rigorous treatment.Comment: 15 pages, contribution to the CAS-CERN Accelerator School: Ion Sources, Senec, Slovakia, 29 May - 8 June 2012, edited by R. Bailey, CERN-2013-00

First Evaluation of the CPU, GPGPU and MIC Architectures for Real Time Particle Tracking based on Hough Transform at the LHC

Recent innovations focused around {\em parallel} processing, either through systems containing multiple processors or processors containing multiple cores, hold great promise for enhancing the performance of the trigger at the LHC and extending its physics program. The flexibility of the CMS/ATLAS trigger system allows for easy integration of computational accelerators, such as NVIDIA's Tesla Graphics Processing Unit (GPU) or Intel's \xphi, in the High Level Trigger. These accelerators have the potential to provide faster or more energy efficient event selection, thus opening up possibilities for new complex triggers that were not previously feasible. At the same time, it is crucial to explore the performance limits achievable on the latest generation multicore CPUs with the use of the best software optimization methods. In this article, a new tracking algorithm based on the Hough transform will be evaluated for the first time on a multi-core Intel Xeon E5-2697v2 CPU, an NVIDIA Tesla K20c GPU, and an Intel \xphi\ 7120 coprocessor. Preliminary time performance will be presented.Comment: 13 pages, 4 figures, Accepted to JINS