The Performance of Different Communication Mechanisms and Algorithms Used for Parallelization of Molecular Dynamics Code

Authors:
Rafal Metkowski;Piotr Bala;Terry W. Clark
Affiliations:
-;-;-
Venue:
PPAM '01 Proceedings of the th International Conference on Parallel Processing and Applied Mathematics-Revised Papers
Year:
2001

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Abstract

Communication performance appears to have the most important influence on parallelization efficiency of large scientific applications. Different communication algorithms and communication mechanisms were used in parallelization of molecular dynamics code. In is shown that in the case of fast communication hardware well scaling algorithm must be used. Presented data shows that MD code can be also run efficiently on the pentium cluster but low latency communication mechanism must be used.