直接非绝热动力学模拟的高效、分层和面向对象电子结构接口。

IF 5.5 1区 化学 Q2 CHEMISTRY, PHYSICAL
Sascha Mausenberger, , , Severin Polonius, , , Sebastian Mai*, , and , Leticia González*, 
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引用次数: 0

摘要

我们提出了一个新颖的、灵活的框架,用于非绝热动力学模拟的电子结构接口,使用面向对象编程的概念在Python 3中实现。该框架通过提供可重用和可扩展的代码库,简化了新接口的开发。它支持计算能量、梯度、各种耦合──如自旋-轨道耦合、非绝热耦合和跃迁偶极矩──以及具有任何多重性和电荷的任意数量的态的其他性质。该框架中的一个关键创新是引入混合接口,它可以以一般的分层方式使用其他接口。混合接口能够使用一个或多个子接口来实现多尺度方法,例如量子力学/分子力学,其中不同的子接口被分配到系统的不同区域。混合接口的概念可以通过嵌套来扩展,其中混合父接口使用混合子接口来轻松设置复杂的工作流,而无需额外的编码。我们用两个例子来演示混合接口的多功能性:一个在方法级别,一个在工作流级别。第一个例子展示了波函数重叠的数值微分,作为混合界面实现,并用于优化具有数值非绝热耦合的最小能量圆锥相交。第二个示例展示了一个自适应学习工作流,其中使用嵌套混合接口迭代地改进机器学习模型。这项工作为激发态动力学中更加模块化、灵活和可扩展的软件设计奠定了基础。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Efficient, Hierarchical, and Object-Oriented Electronic Structure Interfaces for Direct Nonadiabatic Dynamics Simulations

We present a novel, flexible framework for electronic structure interfaces designed for nonadiabatic dynamics simulations, implemented in Python 3 using concepts of object-oriented programming. This framework streamlines the development of new interfaces by providing a reusable and extendable code base. It supports the computation of energies, gradients, various couplings─like spin–orbit couplings, nonadiabatic couplings, and transition dipole moments─and other properties for an arbitrary number of states with any multiplicities and charges. A key innovation within this framework is the introduction of hybrid interfaces, which can use other interfaces in a general hierarchical manner. Hybrid interfaces are capable of using one or more child interfaces to implement multiscale approaches, such as quantum mechanics/molecular mechanics where different child interfaces are assigned to different regions of a system. The concept of hybrid interfaces can be extended through nesting, where hybrid parent interfaces use hybrid child interfaces to easily setup complex workflows without the need for additional coding. We demonstrate the versatility of hybrid interfaces with two examples: one at the method level and one at the workflow level. The first example showcases the numerical differentiation of wave function overlaps, implemented as a hybrid interface and used to optimize a minimum-energy conical intersection with numerical nonadiabatic couplings. The second example presents an adaptive learning workflow, where nested hybrid interfaces are used to iteratively refine a machine learning model. This work lays the groundwork for more modular, flexible, and scalable software design in excited-state dynamics.

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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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