wfl Python']Python toolkit for creating machine learning interatomic potentials and related atomistic simulation workflows

被引:4
|
作者
Gelzinyte, Elena [1 ]
Wengert, Simon [2 ]
Stenczel, Tamas K. [1 ]
Heenen, Hendrik H. [2 ]
Reuter, Karsten [2 ]
Csanyi, Gabor [1 ]
Bernstein, Noam [3 ]
机构
[1] Univ Cambridge, Engn Lab, Trumpington St, Cambridge CB2 1PZ, England
[2] Fritz Haber Inst Max Planck Gesellschaft, Faradayweg 4-6, D-14195 Berlin, Germany
[3] U S Naval Res Lab, Ctr Mat Phys & Technol, Code 6393,4555 Overlook Ave SW, Washington, DC 20375 USA
来源
JOURNAL OF CHEMICAL PHYSICS | 2023年 / 159卷 / 12期
关键词
D O I
10.1063/5.0156845
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
Predictive atomistic simulations are increasingly employed for data intensive high throughput studies that take advantage of constantly growing computational resources. To handle the sheer number of individual calculations that are needed in such studies, workflow management packages for atomistic simulations have been developed for a rapidly growing user base. These packages are predominantly designed to handle computationally heavy ab initio calculations, usually with a focus on data provenance and reproducibility. However, in related simulation communities, e.g., the developers of machine learning interatomic potentials (MLIPs), the computational requirements are somewhat different: the types, sizes, and numbers of computational tasks are more diverse and, therefore, require additional ways of parallelization and local or remote execution for optimal efficiency. In this work, we present the atomistic simulation and MLIP fitting workflow management package wfl and Python remote execution package ExPyRe to meet these requirements. With wfl and ExPyRe, versatile atomic simulation environment based workflows that perform diverse procedures can be written. This capability is based on a low-level developer-oriented framework, which can be utilized to construct high level functionality for user-friendly programs. Such high level capabilities to automate machine learning interatomic potential fitting procedures are already incorporated in wfl, which we use to showcase its capabilities in this work. We believe that wfl fills an important niche in several growing simulation communities and will aid the development of efficient custom computational tasks.
引用
收藏
页数:12
相关论文
共 9 条
  • [1] Atomistic modeling of the mechanical properties: the rise of machine learning interatomic potentials
    Mortazavi, Bohayra
    Zhuang, Xiaoying
    Rabczuk, Timon
    Shapeev, Alexander V.
    [J]. MATERIALS HORIZONS, 2023, 10 (06) : 1956 - 1968
  • [2] Polymers simulation using machine learning interatomic potentials
    Long, Teng
    Li, Jia
    Wang, Chenlu
    Wang, Hua
    Cheng, Xiao
    Lu, Haifeng
    Zhang, Ying
    Zhou, Chuanjian
    [J]. POLYMER, 2024, 308
  • [3] MDSubSampler: A Python']Python library for a posteriori sampling of important protein conformations, automated workflows for mutation engineering and data processing for machine learning prediction
    Oues, Namir
    Dantu, Sarath C.
    Patel, Riktaben J.
    Pandini, Alessandro
    [J]. BIOPHYSICAL JOURNAL, 2024, 123 (03) : 422A - 423A
  • [4] Lattice dynamics simulation using machine learning interatomic potentials
    Ladygin, V. V.
    Korotaev, P. Yu
    Yanilkin, A., V
    Shapeev, A., V
    [J]. COMPUTATIONAL MATERIALS SCIENCE, 2020, 172
  • [5] Atomistic simulations of nuclear fuel UO2 with machine learning interatomic potentials
    Dubois, Eliott T.
    Tranchida, Julien
    Bouchet, Johann
    Maillet, Jean-Bernard
    [J]. PHYSICAL REVIEW MATERIALS, 2024, 8 (02):
  • [6] Communication Development and Verification for Python']Python-Based Machine Learning Models for Real-Time Hybrid Simulation
    Bas, Elif Ecem
    Moustafa, Mohamed A.
    [J]. FRONTIERS IN BUILT ENVIRONMENT, 2020, 6
  • [7] Accurate interatomic force field for molecular dynamics simulation by hybridizing classical and machine learning potentials
    Wang, Peng
    Shao, Yecheng
    Wang, Hongtao
    Yang, Wei
    [J]. EXTREME MECHANICS LETTERS, 2018, 24 : 1 - 5
  • [8] Recent advances in machine learning interatomic potentials for cross-scale computational simulation of materials
    Ran, Nian
    Yin, Liang
    Qiu, Wujie
    Liu, Jianjun
    [J]. SCIENCE CHINA-MATERIALS, 2024, 67 (04) : 1082 - 1100
  • [9] Recent advances in machine learning interatomic potentials for cross-scale computational simulation of materials机器学习原子间势在材料跨尺度计算模拟中的最新进展
    Nian Ran
    Liang Yin
    Wujie Qiu
    Jianjun Liu
    [J]. Science China Materials, 2024, 67 : 1082 - 1100