Parallel simulation environment for polymers, DNA and protein molecular chains
This project presents a parallel simulation environment for polymers, DNA and protein molecular chain simulations. This system is intended to be used by scientist to automatically parallelise computer simulations of complex polymers, DNA and protein molecules in order to study their behaviour and determine their microscopic structure. In this paper we describe the approach chosen to built this system: the graphical user interface (GUI), the virtual machine and the runtime system and dynamic load-balancing support.
KeywordsVirtual Machine Graphical User Interface Load Balance Work Migration Task Graph
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- 1.B.N. Bershad and H.M. Levy. A Remote Computation Facility for a Heterogeneous Environment. IEEE Computer, (5):50–60, May 1988.Google Scholar
- 2.C.C. Chen, J.P. Singh, W.B. Poland, and R.B. Altman. Parallel Protein Structure Determination from Uncertain Data. In Proceedings of Supercomupting'94, 1994.Google Scholar
- 3.E.A. Colbourn. Computer Simulation of Polymers. Longman Sci. Tech., 1994.Google Scholar
- 4.D.F. Hegarty, M.T. Kechadi, and K.A. Dawson. Dynamic Domain Decomposition and Load Balancing for Parallel Simulations of Long Chained Molecules. In Proc. of PARA '95, Workshop on Applied Parallel Computing in Physics, Chemistry and Engineering Science, August 1995.Google Scholar
- 5.M.T. Kechadi, P. Kiernan, D.F. Hegarty, F. McCarthy, and K.A. Dawson. System and Tools for Molecular Chain Simulations on Heterogeneous Distributed Computer Architectures. Technical Report TR-1995-04, Advanced Computational Research Group, University College Dublin, Belfield, Dublin 4, Ireland, June 1995.Google Scholar
- 6.L. Stryer. Biochemistry. Addison-Wesley, 1991.Google Scholar