Paper Citing NAMD - Abstract
Gonnet, Pedro
EFFICIENT AND SCALABLE ALGORITHMS FOR SMOOTHED PARTICLE HYDRODYNAMICS ON HYBRID SHARED/DISTRIBUTED-MEMORY ARCHITECTURES
SIAM JOURNAL ON SCIENTIFIC COMPUTING, 37:C95-C121, 2015
This paper describes a new fast and implicitly parallel approach to neighbor-finding in multiresolution smoothed particle hydrodynamics (SPH) simulations. This new approach is based on hierarchical cell decompositions and sorted interactions, within a task-based formulation. It is shown to be faster than traditional tree-based codes and to scale better than domain decomposition-based approaches on hybrid shared/distributed-memory parallel architectures, e.g., clusters of multicores, achieving a 40x speedup over the Gadget-2 simulation code.
