Chemtrain-Deploy:用于百万原子MD模拟中机器学习潜力的并行和可扩展框架。

IF 5.7 1区 化学 Q2 CHEMISTRY, PHYSICAL
Paul Fuchs, Weilong Chen, Stephan Thaler, Julija Zavadlav
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引用次数: 0

摘要

机器学习潜力(mlp)发展迅速,在分子动力学(MD)模拟中显示出巨大的希望。然而,大多数现有的软件工具都与特定的MLP架构绑定,缺乏与标准MD软件包的集成,或者不能跨gpu并行化。为了解决这些挑战,我们提出了chemtrain-deploy,这是一个框架,可以在LAMMPS中部署与模型无关的mlp。chemtrain-deploy支持任何jax定义的半局部潜能,允许用户利用LAMMPS的功能,并在多个gpu上执行大规模基于mlp的MD模拟。它达到了最先进的效率,并可扩展到包含数百万原子的系统。我们使用图神经网络架构验证其性能和可扩展性,包括MACE, Allegro和PaiNN,应用于各种系统,如液-气界面,晶体材料和溶剂化肽。我们的研究结果突出了化学列车部署在现实世界中高性能模拟的实际效用,并为MLP架构选择和未来设计提供了指导。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
chemtrain-deploy: A Parallel and Scalable Framework for Machine Learning Potentials in Million-Atom MD Simulations.

Machine Learning Potentials (MLPs) have advanced rapidly and show great promise to transform Molecular Dynamics (MD) simulations. However, most existing software tools are tied to specific MLP architectures, lack integration with standard MD packages, or are not parallelizable across GPUs. To address these challenges, we present chemtrain-deploy, a framework that enables the model-agnostic deployment of MLPs in LAMMPS. chemtrain-deploy supports any JAX-defined semilocal potential, allowing users to exploit the functionality of LAMMPS and perform large-scale MLP-based MD simulations on multiple GPUs. It achieves state-of-the-art efficiency and scales to systems containing millions of atoms. We validate its performance and scalability using graph neural network architectures, including MACE, Allegro, and PaiNN, applied to a variety of systems such as liquid-vapor interfaces, crystalline materials, and solvated peptides. Our results highlight the practical utility of chemtrain-deploy for real-world, high-performance simulations and provide guidance for MLP architecture selection and future design.

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来源期刊
Journal of Chemical Theory and Computation
Journal of Chemical Theory and Computation 化学-物理:原子、分子和化学物理
CiteScore
9.90
自引率
16.40%
发文量
568
审稿时长
1 months
期刊介绍: The Journal of Chemical Theory and Computation invites new and original contributions with the understanding that, if accepted, they will not be published elsewhere. Papers reporting new theories, methodology, and/or important applications in quantum electronic structure, molecular dynamics, and statistical mechanics are appropriate for submission to this Journal. Specific topics include advances in or applications of ab initio quantum mechanics, density functional theory, design and properties of new materials, surface science, Monte Carlo simulations, solvation models, QM/MM calculations, biomolecular structure prediction, and molecular dynamics in the broadest sense including gas-phase dynamics, ab initio dynamics, biomolecular dynamics, and protein folding. The Journal does not consider papers that are straightforward applications of known methods including DFT and molecular dynamics. The Journal favors submissions that include advances in theory or methodology with applications to compelling problems.
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