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Programming Massively Parallel Processors, 3rd Edition
book

Programming Massively Parallel Processors, 3rd Edition

by David B. Kirk, Wen-mei W. Hwu
November 2016
Intermediate to advanced content levelIntermediate to advanced
576 pages
18h 22m
English
Morgan Kaufmann
Content preview from Programming Massively Parallel Processors, 3rd Edition
Chapter 15

Application case study—molecular visualization and analysis

John Stone

Abstract

This chapter uses the electrostatic potential calculation in the VMD application to illustrate the practical use of loop transformations, thread granularity coarsening, and redundancy elimination techniques in a real application. It further shows some important details, interleaved data mapping and data structure padding, in achieving memory coalescing in a coarsened kernel.

Keywords

Electrostatic potential energy; molecular dynamics; atomic operation; memory coalescing; thread coarsening

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Publisher Resources

ISBN: 9780128119877