Pairwise fragment interaction computation

Details Pairwise fragment interaction computation Pairwise fragment interaction computation

2007-10-29

2011-12-20

Sims, Jason (Department: 1631)

Data processing: measuring, calibrating, or testing

Measurement system in a specific environment

Biological or biochemical

C702S020000, C703S002000

Reexamination Certificate

active

08082108

ABSTRACT:
An information processing system includes a processor configured for: defining a simulation space comprising a plurality of fragments and a plurality of processing nodes; determining a weight corresponding to the computational cost for a given pairwise fragment interaction; assigning the weight to the simulation space at a point between the two interacting fragments; performing a spatial partitioning of a volume of the simulation space such that all partitions have substantially the same weight; and assigning a computation of the pairwise fragment interaction to any node that has the positions of both groups of fragments.

REFERENCES:
Nyland et al., Achieving Scalable parallel Molecular Dynamics Using Dynamic Spatial Domain Decomposition Techniques, 1997, Journal of Parallel and Distributed Computing, vol. 47, pp. 125-138.
Nakano, Aiichiro, Multiresolution Load Balancing in Curved Space: the wavelet representation, 1999, Concurrency: Practice and Experience, vol. 11, pp. 343-353.
IBM Blue Gene team, “Blue Gene: A vision for protein science using a petaflop supercomputer.” 2001.
T. P. Straatsma, J. A. McCammon, “Load balancing of molecular dynamics simulation with NWChem.” 2201.
The BlueGene/L Team, “An overview of the BlueGene/L supercomputer.” 2002.

Affiliated with

Also associated with

Rating

Pairwise fragment interaction computation does not yet have a rating. At this time, there are no reviews or comments for this patent.

If you have personal experience with Pairwise fragment interaction computation, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Pairwise fragment interaction computation will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFUS-PAI-O-4314912