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2004
IEEE

Reconfigurable Molecular Dynamics Simulator

11 years 9 months ago
Reconfigurable Molecular Dynamics Simulator
Current high-performance applications are typically implemented on large-scale general-purpose distributed or multiprocessing systems often based on commodity microprocessors. Field-Programmable Gate Arrays (FPGAs) have now reached a level of sophistication that they too could be used for such applications. In this paper we explore the feasibility of using FPGAs to implement large-scale application-specific computations by way of a case study that implements a novel Molecular Dynamics system. The system has been designed such that it is scalable and parallelizable. On the Transmogrifier 3 (TM3), the system performs calculations on an 8,192 particle system in 37 seconds at 26MHz. This implementation shows that by scaling to more modern parts running at 100MHz, a speedup of over 20x can be achieved compared to a stateof-the-art microprocessor. This can also be achieved at less cost, using less power and taking less space than a standard microprocessor-based system, while maintaining the...
Navid Azizi, Ian Kuon, Aaron Egier, Ahmad Darabiha
Added 20 Aug 2010
Updated 20 Aug 2010
Type Conference
Year 2004
Where FCCM
Authors Navid Azizi, Ian Kuon, Aaron Egier, Ahmad Darabiha, Paul Chow
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