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ICA3PP
2005
Springer
13 years 10 months ago
GridMD: Program Architecture for Distributed Molecular Simulation
In the present work we describe architectural concepts of the distributed molecular simulation package GridMD. The main purpose of this work is to underline the construction patter...
Ilya Valuev
ICCS
2007
Springer
13 years 8 months ago
Distributed Applications from Scratch: Using GridMD Workflow Patterns
A new approach is proposed to generate workflow scenarios of scientific applications such as Molecular Dynamics and Monte-Carlo simulations in a distributed environment. The approa...
I. Morozov, Ilya Valuev
WSC
1998
13 years 6 months ago
Parallel Implementation of a Molecular Dynamics Simulation Program
We have taken a NIST molecular dynamics simulation program (md3), which was configured as a single sequential process running on a CRAY C90 vector supercomputer, and parallelized ...
Alan Mink, Christophe Bailly
ICS
2009
Tsinghua U.
13 years 11 months ago
Dynamic topology aware load balancing algorithms for molecular dynamics applications
Molecular Dynamics applications enhance our understanding of biological phenomena through bio-molecular simulations. Large-scale parallelization of MD simulations is challenging b...
Abhinav Bhatele, Laxmikant V. Kalé, Sameer ...
IPPS
2010
IEEE
13 years 2 months ago
Improving numerical reproducibility and stability in large-scale numerical simulations on GPUs
The advent of general purpose graphics processing units (GPGPU's) brings about a whole new platform for running numerically intensive applications at high speeds. Their multi-...
Michela Taufer, Omar Padron, Philip Saponaro, Sand...