线性缩放库仑相互作用在多小波基础上,一个并行实现

IF 0.9 Q3 COMPUTER SCIENCE, THEORY & METHODS
S. R. Jensen, J. Jusélius, A. Durdek, T. Flå, P. Wind, L. Frediani
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引用次数: 11

摘要

我们提出了一种平行和线性缩放的方法来计算由任意电荷分布引起的静电势。我们的方法是利用多小波的多分辨率基础。势是泊松方程的格林函数积分形式的直接解。在多小波基中,形式上的非局部积分算子迅速衰减到远离主对角线的可忽略值,产生有效的带状结构,其中带宽仅由所要求的精度决定。这种稀疏算子结构已被用于实现线性缩放和并行算法。通过共享内存(OpenMP)和消息传递接口(MPI)范式实现了并行化。我们的实现已经通过计算长链烷烃和钻石碎片的电子密度的静电势进行了测试,显示出与系统大小和有效并行化的(亚)线性缩放。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Linear scaling Coulomb interaction in the multiwavelet basis, a parallel implementation
We present a parallel and linear scaling implementation of the calculation of the electrostatic potential arising from an arbitrary charge distribution. Our approach is making use of the multi-resolution basis of multiwavelets. The potential is obtained as the direct solution of the Poisson equation in its Green's function integral form. In the multiwavelet basis, the formally non local integral operator decays rapidly to negligible values away from the main diagonal, yielding an effectively banded structure where the bandwidth is only dictated by the requested accuracy. This sparse operator structure has been exploited to achieve linear scaling and parallel algorithms. Parallelization has been achieved both through the shared memory (OpenMP) and the message passing interface (MPI) paradigm. Our implementation has been tested by computing the electrostatic potential of the electronic density of long-chain alkanes and diamond fragments showing (sub)linear scaling with the system size and efficent parallelization.
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来源期刊
CiteScore
2.50
自引率
16.70%
发文量
0
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