Load Balancing of Molecular Dynamics Simulation with NWChem
NWChem is the massively parallel software for computational chemistry developed for the Environmental Molecular Sciences Laboratory at the U.S. Department of Energy's Pacific Northwest National Laboratory. This software integrates a range of modules for computational chemistry applications, including classical molecular dynamics simulations and quantum-mechanical calculations. This contribution provides details of the classical molecular dynamics module, and focuses on issues related to load balancing on massively parallel computers, in particular the IBM-SP and the Cray-T3E as examples of distributed and shared memory massively parallel acrhitectures. The implementation of the molecular dynamics module of NWChem is based on a domain decomposition of the chemical system, taking advantage of the distribution of data to reduce the memory requirements, and the locality of intermolecular interactions to reduce the communication requirements. This approach results in a more complex implementation because of the requirement of periodic atomic reassignments and the need for sophisticated load balancing techniques.
- Research Organization:
- Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
- Sponsoring Organization:
- USDOE
- DOE Contract Number:
- AC05-76RL01830
- OSTI ID:
- 15005638
- Report Number(s):
- PNNL-SA-33316; KP1704020; TRN: US200323%%449
- Journal Information:
- IBM Systems Journal, 40(2):328-341, Vol. 40, Issue 2
- Country of Publication:
- United States
- Language:
- English
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