Lars Nyland, Jan Prins, Ru Huai Yun, Jan Hermans, Hye-Chung Kum, and Lei Wang ...  Home/Search
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Abstract: . To achieve scalable parallel performance in Molecular Dynamics Simulation, we have modeled and implemented several dynamic spatial domain decomposition algorithms. The modeling is based upon Valiant's Bulk Synchronous Parallel architecture model (BSP), which describes supersteps of computation, communication, and synchronization. We have developed prototypes that estimate the differing costs of several spatial decomposition algorithms using the BSP model. Our parallel MD implementation ... (Update)
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BibTeX entry: (Update)
@inproceedings{ nyland98modeling,
author = "Lars S. Nyland and Jan Prins and Ru Huai Yun and Jan Hermans and Hye-Chung Kum and Lei Wang",
title = "Modeling Dynamic Load Balancing in Molecular Dynamics to Achieve Scalable Parallel Execution",
booktitle = "Workshop on Parallel Algorithms for Irregularly Structured Problems",
pages = "356-365",
year = "1998",
url = "citeseer.ist.psu.edu/279958.html" }
Citations (may not include all citations):735 A bridging model for parallel computation (context) - Valiant - 1990
60 Scientific computing on bulk synchronous parallel architectu.. - Bisseling, McColl - 1994
29 Parallelizing molecular dynamics using spatial decomposition - Clark, Hanxleden et al. - 1994
17 object-oriented molecular dynamics program (context) - Nelson, Humphrey et al.
13 Scalable variants of multipole-accelerated algorithms for mo.. - Board, Ziyad et al. - 1994
10 Parallelizing molecular dynamics programs for distributed me.. (context) - Hwang, Das et al. - 1994
8 SMD: Visual steering of molecular dynamics for protein desig.. - Leech, Prins et al. - 1996
6 Particle mesh ewald: An n log (context) - Darden, York et al. - 1993
2 AMBER -- molecular dynamics (context) - Case, Greenberg et al. - 1995
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