Automatic Generation of FFT for Translations of Multipole Expansions in Spherical Harmonics

Author:

Kurzak Jakub1,Mirkovic Dragan2,Pettitt B. Montgomery3,Johnsson S. Lennart2

Affiliation:

1. Department Of Electrical Engineering and Computer Science,University of Tennessee, Knoxville, Tennessee 37996,

2. Department of Computer Science, University of Houston, Houston, Texas 77204

3. Department of Computer Science, University of Houston, Houston, Texas 77204, Department of Chemistry, University of Houston, Houston, Texas 77204

Abstract

The fast multipole method (FMM) is an efficient algorithm for calculating electrostatic interactions in molecular simulations and a promising alternative to Ewald summation methods. Translation of multipole expansion in spherical harmonics is the most important operation of the fast multipole method and the fast Fourier transform (FFT) acceleration of this operation is among the fastest methods of improving its performance. The technique relies on highly optimized implementation of fast Fourier transform routines for the desired expansion sizes, which need to incorporate the knowledge of symmetries and zero elements in the input arrays. Here a method is presented for automatic generation of such, highly optimized, routines.

Publisher

SAGE Publications

Subject

Hardware and Architecture,Theoretical Computer Science,Software

Cited by 3 articles. 订阅此论文施引文献 订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献

1. A Two-Step Surface Reconstruction Method Using Signed Marching Cubes;Applied Sciences;2022-02-09

2. Classical Electrostatics for Biomolecular Simulations;Chemical Reviews;2013-08-27

3. Automatic Tuning of the Fast Multipole Method Based on Integrated Performance Prediction;2012 IEEE 14th International Conference on High Performance Computing and Communication & 2012 IEEE 9th International Conference on Embedded Software and Systems;2012-06

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