Regularizing the fast multipole method for use in molecular simulation.


Journal

The Journal of chemical physics
ISSN: 1089-7690
Titre abrégé: J Chem Phys
Pays: United States
ID NLM: 0375360

Informations de publication

Date de publication:
21 Dec 2019
Historique:
entrez: 23 12 2019
pubmed: 23 12 2019
medline: 23 12 2019
Statut: ppublish

Résumé

The parallel scaling of classical molecular dynamics simulations is limited by the communication of the 3D fast Fourier transform of the particle-mesh electrostatics methods, which are used by most molecular simulation packages. The Fast Multipole Method (FMM) has much lower communication requirements and would, therefore, be a promising alternative to mesh based approaches. However, the abrupt switch from direct particle-particle interactions to approximate multipole interactions causes a violation of energy conservation, which is required in molecular dynamics. To counteract this effect, higher accuracy must be requested from the FMM, leading to a substantially increased computational cost. Here, we present a regularization of the FMM that provides analytical energy conservation. This allows the use of a precision comparable to that used with particle-mesh methods, which significantly increases the efficiency. With an application to a 2D system of dipolar molecules representative of water, we show that the regularization not only provides energy conservation but also significantly improves the accuracy. The latter is possible due to the local charge neutrality in molecular systems. Additionally, we show that the regularization reduces the multipole coefficients for a 3D water model even more than in our 2D example.

Identifiants

pubmed: 31864270
doi: 10.1063/1.5122859
doi:

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

234113

Auteurs

D S Shamshirgar (DS)

Department of Mathematics and Swedish e-Science Research Centre, KTH Royal Institute of Technology, 100 44 Stockholm, Sweden.

R Yokota (R)

Global Scientific Information and Computing Center, Tokyo Institute of Technology, Tokyo, Japan.

A-K Tornberg (AK)

Department of Mathematics and Swedish e-Science Research Centre, KTH Royal Institute of Technology, 100 44 Stockholm, Sweden.

B Hess (B)

Department of Applied Physics and Swedish e-Science Research Centre, KTH Royal Institute of Technology, 106 91 Stockholm, Sweden.

Classifications MeSH