Literature DB >> 21541960

Acceleration of a QM/MM-QMC simulation using GPU.

Yutaka Uejima1, Tomoharu Terashima, Ryo Maezono.   

Abstract

We accelerated an ab initio molecular QMC calculation by using GPGPU. Only the bottle-neck part of the calculation is replaced by CUDA subroutine and performed on GPU. The performance on a (single core CPU + GPU) is compared with that on a (single core CPU with double precision), getting 23.6 (11.0) times faster calculations in single (double) precision treatments on GPU. The energy deviation caused by the single precision treatment was found to be within the accuracy required in the calculation, ∼10(-5) hartree. The accelerated computational nodes mounting GPU are combined to form a hybrid MPI cluster on which we confirmed the performance linearly scales to the number of nodes.
Copyright © 2011 Wiley Periodicals, Inc.

Entities:  

Keywords:  CUDA; FMO; GPGPU; MPI; QM/MM; electronic structure; quantum Monte Carlo

Year:  2011        PMID: 21541960     DOI: 10.1002/jcc.21809

Source DB:  PubMed          Journal:  J Comput Chem        ISSN: 0192-8651            Impact factor:   3.376


  1 in total

1.  Molecular simulation methods in drug discovery: a prospective outlook.

Authors:  Xavier Barril; F Javier Luque
Journal:  J Comput Aided Mol Des       Date:  2011-12-08       Impact factor: 3.686

  1 in total

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