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网络连接:通往理论X射线吸收光谱学的途径。

Web-CONEXS: an inroad to theoretical X-ray absorption spectroscopy.

作者信息

Elliott Joshua D, Rogalev Victor, Wilson Nigel, Duta Mihai, Reynolds Christopher J, Filik Jacob, Penfold Thomas J, Diaz-Moreno Sofia

机构信息

Diamond Light Source, Harwell Science and Innovation Park, Didcot, Oxfordshire OX11 8UQ, United Kingdom.

Chemistry - School of Natural and Environmental Science, Newcastle University, Newcastle Upon-Tyne NE1 7RU, United Kingdom.

出版信息

J Synchrotron Radiat. 2024 Sep 1;31(Pt 5):1276-1284. doi: 10.1107/S1600577524005630. Epub 2024 Aug 1.

Abstract

Accurate analysis of the rich information contained within X-ray spectra usually calls for detailed electronic structure theory simulations. However, density functional theory (DFT), time-dependent DFT and many-body perturbation theory calculations increasingly require the use of advanced codes running on high-performance computing (HPC) facilities. Consequently, many researchers who would like to augment their experimental work with such simulations are hampered by the compounding of nontrivial knowledge requirements, specialist training and significant time investment. To this end, we present Web-CONEXS, an intuitive graphical web application for democratizing electronic structure theory simulations. Web-CONEXS generates and submits simulation workflows for theoretical X-ray absorption and X-ray emission spectroscopy to a remote computing cluster. In the present form, Web-CONEXS interfaces with three software packages: ORCA, FDMNES and Quantum ESPRESSO, and an extensive materials database courtesy of the Materials Project API. These software packages have been selected to model diverse materials and properties. Web-CONEXS has been conceived with the novice user in mind; job submission is limited to a subset of simulation parameters. This ensures that much of the simulation complexity is lifted and preliminary theoretical results are generated faster. Web-CONEXS can be leveraged to support beam time proposals and serve as a platform for preliminary analysis of experimental data.

摘要

对X射线光谱中所包含的丰富信息进行精确分析通常需要详细的电子结构理论模拟。然而,密度泛函理论(DFT)、含时密度泛函理论和多体微扰理论计算越来越需要使用在高性能计算(HPC)设施上运行的高级代码。因此,许多希望用此类模拟来补充其实验工作的研究人员受到了非平凡知识要求、专业培训和大量时间投入等因素叠加的阻碍。为此,我们推出了Web-CONEXS,这是一个直观的图形化网络应用程序,旨在使电子结构理论模拟民主化。Web-CONEXS会生成并向远程计算集群提交用于理论X射线吸收光谱和X射线发射光谱的模拟工作流程。以目前的形式,Web-CONEXS与三个软件包进行交互:ORCA、FDMNES和Quantum ESPRESSO,以及由材料项目应用程序编程接口提供的广泛材料数据库。选择这些软件包来模拟各种材料和性质。Web-CONEXS在设计时考虑到了新手用户;作业提交仅限于模拟参数的一个子集。这确保了大部分模拟复杂性得以消除,并且能更快地生成初步理论结果。Web-CONEXS可用于支持束流时间申请,并作为实验数据分析的初步平台。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/52da/11371047/0bfc30089abe/s-31-01276-fig1.jpg

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