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基于自动微分的反应动力学程序设计

Program design of reaction kinetics based on automatic differentiation

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【作者】 苗树伟解德欣刘建鹏叶中豪郭峰

【Author】 Miao Shuwei;Xie Dexin;Liu Jianpeng;Ye Zhonghao;Guo Feng;School of Physical Science and Information Technology, Liaocheng University;Shandong Provincial Key Laboratory of Optical Communication Science and Technology;

【通讯作者】 郭峰;

【机构】 聊城大学物理科学与信息工程学院山东省光通信科学与技术重点实验室

【摘要】 针对ReaxFF反应力场,开发了一套基于PyTorch的计算软件,功能上实现了直接读取分子动力学轨迹文件并计算分子运动模拟过程中的原子所受到的势能函数等能量项。将这些能量项在分子运动模拟各个时刻的值直观地展现在科研人员面前。使用GULP也同样地计算了这些势能函数,经过对比可以看到与经GULP计算后绘制的势能函数图像重合,证明了代码是准确且可靠的。并且引入自动微分技术,使得ReaxFF可以与神经网络结合进行优化。

【Abstract】 For the ReaxFF reaction field, a set of calculation software based on PyTorch is developed, which can directly read the molecular dynamics trajectory file and calculate the energy terms such as the potential energy function of atoms in the process of molecular motion simulation. These energy terms are intuitively displayed to researchers in the simulation of molecular motion at each time value. These potential energy functions are also calculated using GULP(general utility lattice program). By comparison, it can be seen that the potential energy function images calculated by GULP coincide. It is proved that the code is accurate and reliable. And the introduction of automatic differentiation technology makes ReaxFF can be combined with neural network optimization.

【关键词】 ReaxFF力场分子动力学自动微分
【Key words】 ReaxFFmolecular dynamicsautomatic differential
【基金】 国家自然科学基金(11504153)
  • 【文献出处】 现代计算机 ,Modern Computer , 编辑部邮箱 ,2023年07期
  • 【分类号】O56;TP391.9
  • 【下载频次】7
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