German Engineering Materials Science Centre (GEMS) at Heinz Maier-Leibnitz Zentrum (MLZ), Helmholtz-Zentrum Hereon GmbH, Lichtenbergstr. 1, 85748 Garching, Germany.
Institute of Materials Physics, Helmholtz-Zentrum Hereon GmbH, Max-Planck-Str. 1, 21502 Geesthacht, Germany.
Int J Mol Sci. 2024 Jan 26;25(3):1547. doi: 10.3390/ijms25031547.
Molecular Dynamics simulations study material structure and dynamics at the atomic level. X-ray and neutron scattering experiments probe exactly the same time- and length scales as the simulations. In order to benchmark simulations against measured scattering data, a program is required that computes scattering patterns from simulations with good single-core performance and support for parallelization. In this work, the existing program Sassena is used as a potent solution to this requirement for a range of scattering methods, covering pico- to nanosecond dynamics, as well as the structure from some Ångströms to hundreds of nanometers. In the case of nanometer-level structures, the finite size of the simulation box, which is referred to as the , has to be factored into the computations for which a method is described and implemented into Sassena. Additionally, the single-core and parallelization performance of Sassena is investigated, and several improvements are introduced.
分子动力学模拟研究原子水平的材料结构和动力学。X 射线和中子散射实验精确探测与模拟相同的时间和长度尺度。为了将模拟与测量的散射数据进行基准测试,需要一个程序,该程序应具有良好的单核性能和对并行化的支持,以便从模拟中计算散射模式。在这项工作中,现有的程序 Sassena 被用作满足一系列散射方法要求的有力解决方案,涵盖皮秒到纳秒动力学,以及从一些埃到数百纳米的结构。在纳米级结构的情况下,模拟盒的有限大小(称为 )必须被纳入计算,为此描述并实现了一种方法 Sassena。此外,还研究了 Sassena 的单核和并行化性能,并引入了一些改进。