Parallel molecular dynamics simulations for short-ranged many-body potentials

CF Cornwell and LT Wille, COMPUTER PHYSICS COMMUNICATIONS, 128, 477-491 (2000).

DOI: 10.1016/S0010-4655(00)00051-5

A new method is described that permits the efficient execution of parallel molecular dynamics simulations for irregular problems with several thousands of atoms on Single-Instruction Multiple-Data computers. The approach is based on a data-parallel atomic decomposition scheme and has overall time-complexity O(N), where N is the size of the system. The method has been implemented on a MasPar MP-I computer and was found to obey theoretical timing estimates. The methodology has wide applicability and can be ported to other architectures in a straightforward manner. (C) 2000 Elsevier Science B.V. All rights reserved.

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