A new dynamical domain decomposition method for parallel molecular dynamics simulation

Author

Zhakhovskii, V. ; Nishihara, K. ; Fukuda, Y. ; Shimojo, S. ; Akiyama, T. ; Miyanaga, S. ; Sone, H. ; Kobayashi, H. ; Ito, E. ; Seo, Y. ; Tamura, M. ; Ueshima, Y.

Author_Institution

Inst. of Laser Eng., Osaka Univ., Japan

Volume

2

fYear

2005

fDate

9-12 May 2005

Firstpage

848

Abstract

A new material particle dynamical domain decomposition method MPD³ has been developed. The method is suitable for a large scale parallel molecular dynamic simulation on a heterogeneous computing net. Performance of the MPD³ algorithm is tested in various computing environments, such as PC clusters, super computer clusters, and grid. It is shown that the MPD³ algorithm is highly-adaptive for both computer clusters and grid computing environments, even if other programs are running on the same computer environment.

Keywords

digital simulation; grid computing; molecular dynamics method; parallel algorithms; resource allocation; PC cluster; dynamical domain decomposition; grid computing; heterogeneous computing net; parallel molecular dynamic simulation; super computer cluster; Clustering algorithms; Computational modeling; Computer networks; Concurrent computing; Grid computing; Large-scale systems; Load management; Physics; Supercomputers; Testing;

fLanguage

English

Publisher

ieee

Conference_Titel

Cluster Computing and the Grid, 2005. CCGrid 2005. IEEE International Symposium on

Print_ISBN

0-7803-9074-1

Type

conf

DOI

10.1109/CCGRID.2005.1558650

Filename

1558650