GPU-accelerated molecular modeling coming of age

JE Stone, DJ Hardy, IS Ufimtsev, K Schulten - Journal of Molecular …, 2010 - Elsevier
Graphics processing units (GPUs) have traditionally been used in molecular modeling solely
for visualization of molecular structures and animation of trajectories resulting from …

High-order finite-element seismic wave propagation modeling with MPI on a large GPU cluster

D Komatitsch, G Erlebacher, D Göddeke… - Journal of computational …, 2010 - Elsevier
We implement a high-order finite-element application, which performs the numerical
simulation of seismic wave propagation resulting for instance from earthquakes at the scale …

Accelerated finite element elastodynamic simulations using the GPU

P Huthwaite - Journal of Computational Physics, 2014 - Elsevier
An approach is developed to perform explicit time domain finite element simulations of
elastodynamic problems on the graphical processing unit, using Nvidiaʼs CUDA. Of critical …

State-of-the-art in heterogeneous computing

AR Brodtkorb, C Dyken, TR Hagen… - Scientific …, 2010 - content.iospress.com
Node level heterogeneous architectures have become attractive during the last decade for
several reasons: compared to traditional symmetric CPUs, they offer high peak performance …

GPU clusters for high-performance computing

VV Kindratenko, JJ Enos, G Shi… - 2009 IEEE …, 2009 - ieeexplore.ieee.org
Large-scale GPU clusters are gaining popularity in the scientific computing community.
However, their deployment and production use are associated with a number of new …

Porting a high-order finite-element earthquake modeling application to NVIDIA graphics cards using CUDA

D Komatitsch, D Michéa, G Erlebacher - Journal of Parallel and Distributed …, 2009 - Elsevier
We port a high-order finite-element application that performs the numerical simulation of
seismic wave propagation resulting from earthquakes in the Earth on NVIDIA GeForce 8800 …

Integrated digital image correlation for the identification of mechanical properties

H Leclerc, JN Périé, S Roux, F Hild - … 2009, Rocquencourt, France, May 4-6 …, 2009 - Springer
Abstract Digital Image Correlation (DIC) is a powerful technique to provide full-field
displacement measurements for mechanical tests of materials and structures. The …

Hybrid CUDA, OpenMP, and MPI parallel programming on multicore GPU clusters

CT Yang, CL Huang, CF Lin - Computer Physics Communications, 2011 - Elsevier
Nowadays, NVIDIA's CUDA is a general purpose scalable parallel programming model for
writing highly parallel applications. It provides several key abstractions–a hierarchy of thread …

Adapting a message-driven parallel application to GPU-accelerated clusters

JC Phillips, JE Stone, K Schulten - SC'08: Proceedings of the …, 2008 - ieeexplore.ieee.org
Graphics processing units (GPUs) have become an attractive option for accelerating
scientific computations as a result of advances in the performance and flexibility of GPU …

A comparison of three parallelisation methods for 2D flood inundation models

JC Neal, TJ Fewtrell, PD Bates, NG Wright - Environmental Modelling & …, 2010 - Elsevier
For many applications two-dimensional hydraulic models are time intensive to run due to
their computational requirements, which can adversely affect the progress of both research …