de Oliveira Bispo Matheus, Barbatti Mario
Aix Marseille University, CNRS, ICR, 13397 Marseille, France.
Institut Universitaire de France, 75231 Paris, France.
J Phys Chem Lett. 2024 Nov 28;15(47):11891-11895. doi: 10.1021/acs.jpclett.4c02860. Epub 2024 Nov 21.
Molecular dynamics (MD) simulations are essential for studying the time evolution of molecular systems. Still, their efficiency is often bottlenecked by file-based interprocess communication (IPC) between MD and electronic structure programs. We present a socket-based IPC implementation that dramatically accelerates MD simulations, reducing the computational time by >10-fold compared to those of traditional file-based methods. Our approach, applied to nonadiabatic molecular dynamics with the Newton-X program, eliminates disk read/write overhead, allowing for faster simulations over longer time scales. This method opens the door to more efficient high-throughput simulations, providing new opportunities for exploring complex molecular processes in real time.
分子动力学(MD)模拟对于研究分子系统的时间演化至关重要。然而,其效率常常受到MD与电子结构程序之间基于文件的进程间通信(IPC)的限制。我们提出了一种基于套接字的IPC实现方法,该方法显著加速了MD模拟,与传统的基于文件的方法相比,计算时间减少了10倍以上。我们的方法应用于使用Newton-X程序的非绝热分子动力学,消除了磁盘读写开销,从而能够在更长的时间尺度上进行更快的模拟。这种方法为更高效的高通量模拟打开了大门,为实时探索复杂分子过程提供了新的机会。