Comparisons between full molecular dynamics simulation and Zhang’s multiscale scheme for nanochannel flows

IF 2.1 4区 化学 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY
Chuntao Jiang, Yongbin Zhang
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引用次数: 0

Abstract

Context

In a very small surface separation, the fluid flow is actually multiscale consisting of both the molecular scale non-continuum adsorbed layer flow and the intermediate macroscopic continuum fluid flow. Classical simulation of this flow often takes over large computational source and is not affordable owing to using molecular dynamics simulation (MDS) to model the adsorbed layer flow, if the flow field size is on the engineering size scale such as of 0.01–10 mm or even bigger like occurring in micro or macro hydrodynamic bearings. The present paper uses full MDS to validate Zhang’s multiscale flow model, which yields the closed-form explicit flow equations respectively for the adsorbed layer flow and the intermediate continuum fluid flow. Here, full MDS was carried out for the pressure-driven flow of methane in the nano slit pore made of silicon respectively with the channel heights 5.79 nm, 11.57 nm, and 17.36 nm. According to the number density distribution, the flow areas were respectively discriminated as the adsorbed layer zone and the intermediate fluid zone. The values of the characteristic parameters for Zhang’s multiscale scheme were extracted from full MDS and input to Zhang’s multiscale flow equations respectively for calculating the flow velocity profile and the volume flow rates of the adsorbed layers and the intermediate fluid. It was found that for these three channel heights, the flow velocity profiles calculated from Zhang’s model approximate those calculated from full MDS, while the total flow rates through the channel calculated from Zhang’s model are close to those calculated from full MDS. The accuracy of Zhang’s multiscale flow model is improved with the increase of the channel height.

Method

The recent modification of the optimized potential for liquid simulation (MOPLS) model was used to calculate the interaction force between two methane molecules. In order to calculate the interaction force between the wall atoms and the methane molecules accurately, our previous non-equilibrium multiscale MDS was used. The interaction forces between the methane molecule and the wall atom were obtained from the coupled potential function by the L-B mixing rule when the fluid molecules arrived at near wall. The methane molecule diameter was obtained from the radial distribution function by using equilibrium MDS under the same initial conditions. The local viscosities across the adsorbed layer were obtained from the local velocity profile by using the Poiseuille flow method. The motion equation of the methane molecule was solved by the leapfrog method. The temperature of the simulation system was checked by Bhadauria’s method, i.e., the system temperature was rectified by the velocities in the y- and z-directions. The flow velocity distributions across the channel height and the volume flow rates through the channel were also calculated from Zhang’s closed-form explicit flow equations respectively for the adsorbed layer flow and the intermediate fluid flow. The results respectively obtained from full MDS and Zhang’s multiscale flow equations were then compared.

Abstract Image

Abstract Image

纳米通道流的全分子动力学模拟与 Zhang 的多尺度方案之间的比较
背景 在极小的表面分离中,流体流动实际上是多尺度的,包括分子尺度的非连续吸附层流动和中间的宏观连续流体流动。如果流场尺寸在工程尺寸尺度上,如 0.01-10 毫米或更大,如发生在微观或宏观流体动力轴承中,则使用分子动力学模拟(MDS)来模拟吸附层流动往往需要大量计算资源,而且无法承受。本文利用全 MDS 验证了张的多尺度流动模型,分别得到了吸附层流动和中间连续流体流动的闭式显式流动方程。本文分别对通道高度为 5.79 nm、11.57 nm 和 17.36 nm 的硅纳米缝隙孔隙中甲烷的压力驱动流动进行了全 MDS 验证。根据数密度分布,流动区域分别被划分为吸附层区和中间流体区。从全 MDS 中提取张氏多尺度方案的特征参数值,分别输入张氏多尺度流动方程,计算吸附层和中间流体的流速剖面和体积流量。结果发现,对于这三种通道高度,张氏模型计算出的流速剖面与全 MDS 计算出的流速剖面接近,而张氏模型计算出的通过通道的总流量与全 MDS 计算出的总流量接近。张氏多尺度流动模型的精确度随着通道高度的增加而提高。为了精确计算壁面原子与甲烷分子之间的相互作用力,我们使用了之前的非平衡多尺度 MDS。甲烷分子和壁面原子之间的相互作用力是根据流体分子到达壁面附近时的 L-B 混合规则从耦合势函数中得到的。甲烷分子直径是在相同的初始条件下通过使用平衡 MDS 从径向分布函数得到的。吸附层上的局部粘度是通过普瓦赛流法从局部速度曲线中得到的。甲烷分子的运动方程采用跃迁法求解。用 Bhadauria 方法检测了模拟系统的温度,即用 y 和 z 方向的速度对系统温度进行整流。根据张氏闭式显式流动方程,还分别计算了吸附层流动和中间流体流动在通道高度上的流速分布和通过通道的体积流量。然后比较了完全 MDS 和 Zhang 的多尺度流动方程分别得出的结果。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Journal of Molecular Modeling
Journal of Molecular Modeling 化学-化学综合
CiteScore
3.50
自引率
4.50%
发文量
362
审稿时长
2.9 months
期刊介绍: The Journal of Molecular Modeling focuses on "hardcore" modeling, publishing high-quality research and reports. Founded in 1995 as a purely electronic journal, it has adapted its format to include a full-color print edition, and adjusted its aims and scope fit the fast-changing field of molecular modeling, with a particular focus on three-dimensional modeling. Today, the journal covers all aspects of molecular modeling including life science modeling; materials modeling; new methods; and computational chemistry. Topics include computer-aided molecular design; rational drug design, de novo ligand design, receptor modeling and docking; cheminformatics, data analysis, visualization and mining; computational medicinal chemistry; homology modeling; simulation of peptides, DNA and other biopolymers; quantitative structure-activity relationships (QSAR) and ADME-modeling; modeling of biological reaction mechanisms; and combined experimental and computational studies in which calculations play a major role.
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