Electron density analysis of large (molecular and periodic) systems: A parallel implementation

被引:46
|
作者
Casassa, Silvia [1 ,2 ]
Erba, Alessandro [1 ,2 ]
Baima, Jacopo [1 ,2 ]
Orlando, Roberto [1 ,2 ]
机构
[1] Univ Turin, Dipartimento Chim, I-10125 Turin, Italy
[2] Ctr Excellence, Nanostruct Interfaces & Surfaces, I-10125 Turin, Italy
关键词
topological analysis; Bader; parallelism; ab initio; Crystal program; GENERALIZED GRADIENT APPROXIMATION; MAXIMUM PROBABILITY DOMAINS; FUNCTIONAL APPROXIMATIONS; CHARGE-DENSITY; EXCHANGE; CRYSTALS; THERMOCHEMISTRY; ELEMENTS; CRAMBIN; POINTS;
D O I
10.1002/jcc.24033
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
A parallel implementation is presented of a series of algorithms for the evaluation of several one-electron properties of large molecular and periodic (of any dimensionality) systems. The electron charge and momentum densities of the system, the electrostatic potential, X-ray structure factors, directional Compton profiles can be effectively evaluated at low computational cost along with a full topological analysis of the electron charge density (ECD) of the system according to Bader's quantum theory of atoms in molecules. The speedup of the parallelization of the different algorithms is presented. The search of all symmetry-irreducible critical points of the ECD of the crystallized crambin protein and the evaluation of all the corresponding bond paths, for instance, would require about 32 days if run in serial mode and reduces to less than 2 days when run in parallel mode over 32 processors. (c) 2015 Wiley Periodicals, Inc.
引用
收藏
页码:1940 / 1946
页数:7
相关论文
共 50 条
  • [1] Local MP2 with Density Fitting for Periodic Systems: A Parallel Implementation
    Maschio, Lorenzo
    JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2011, 7 (09) : 2818 - 2830
  • [2] Extending Density-Corrected Density Functional Theory to Large Molecular Systems
    Kim, Youngsam
    Sim, Mingyu
    Lee, Minhyeok
    Kim, Sehun
    Song, Suhwan
    Burke, Kieron
    Sim, Eunji
    JOURNAL OF PHYSICAL CHEMISTRY LETTERS, 2025, 16 (04): : 939 - 947
  • [3] Efficient Hybrid Density Functional Calculations for Large Periodic Systems Using Numerical Atomic Orbitals
    Lin, Peize
    Ren, Xinguo
    He, Lixin
    JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021, 17 (01) : 222 - 239
  • [4] Parallel implementation of the ab initio CRYSTAL program: electronic structure calculations for periodic systems
    Bush, I. J.
    Tomic, S.
    Searle, B. G.
    Mallia, G.
    Bailey, C. L.
    Montanari, B.
    Bernasconi, L.
    Carr, J. M.
    Harrison, N. M.
    PROCEEDINGS OF THE ROYAL SOCIETY A-MATHEMATICAL PHYSICAL AND ENGINEERING SCIENCES, 2011, 467 (2131): : 2112 - 2126
  • [5] Efficient and low-scaling linear-response time-dependent density functional theory implementation for core-level spectroscopy of large and periodic systems
    Bussy, Augustin
    Hutter, Jurg
    PHYSICAL CHEMISTRY CHEMICAL PHYSICS, 2021, 23 (08) : 4736 - 4746
  • [6] Massively parallel fragment-based quantum chemistry for large molecular systems: the SERESTIPY software
    Eschenbach, Patrick
    Niemeyer, Niklas
    Neugebauer, Johannes
    CANADIAN JOURNAL OF CHEMISTRY, 2023, 101 (09) : 641 - 655
  • [7] Electron transfer in extended systems: characterization by periodic density functional theory including the electronic coupling
    Behara, Pavan Kumar
    Dupuis, Michel
    PHYSICAL CHEMISTRY CHEMICAL PHYSICS, 2020, 22 (19) : 10609 - 10623
  • [8] Subspace Density Matrix Functional Embedding Theory: Theory, Implementation, and Applications to Molecular Systems
    Zhang, Xing
    Carter, Emily A.
    JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2019, 15 (02) : 949 - 960
  • [9] Massively parallel implementation of iterative eigensolvers in large-scale plane-wave density functional theory
    Feng, Junwei
    Wan, Lingyun
    Li, Jielan
    Jiao, Shizhe
    Cui, Xinhui
    Hu, Wei
    Yang, Jinlong
    COMPUTER PHYSICS COMMUNICATIONS, 2024, 299
  • [10] Revealing Molecular Electronic Structure via Analysis of Valence Electron Density
    Lu Tian
    Chen Qinxue
    ACTA PHYSICO-CHIMICA SINICA, 2018, 34 (05) : 503 - 513