relentless:用于优化的透明、可重复的分子动力学模拟

Adithya N Sreenivasan, C. Levi Petix, Zachary M. Sherman, Michael P. Howard
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引用次数: 0

摘要

relentless 是一个开源 Python 软件包,用于优化分子动力学模拟计算的目标函数。它拥有高级别的可扩展接口,可用于模型参数化;在成熟软件包中原生设置、运行和分析模拟;以及基于梯度的优化。我们以相对熵最小化为背景描述了 relentless 的设计和实现,并展示了它设计粒子间成对相互作用以形成目标结构的能力。 relentless 旨在简化计算材料设计方法的开发,提高集成分子动力学模拟的复杂工作流的透明度和可重复性。
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relentless: Transparent, reproducible molecular dynamics simulations for optimization
relentless is an open-source Python package that enables the optimization of objective functions computed using molecular dynamics simulations. It has a high-level, extensible interface for model parametrization; setting up, running, and analyzing simulations natively in established software packages; and gradient-based optimization. We describe the design and implementation of relentless in the context of relative entropy minimization, and we demonstrate its abilities to design pairwise interactions between particles that form targeted structures. relentless aims to streamline the development of computational materials design methodologies and promote the transparency and reproducibility of complex workflows integrating molecular dynamics simulations.
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