The Hartree%Fock Method
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Arxiv:1809.04476V2 [Physics.Chem-Ph] 18 Oct 2018 (Sub)States
Quantum System Partitioning at the Single-Particle Level Quantum System Partitioning at the Single-Particle Level Adrian H. M¨uhlbach and Markus Reihera) ETH Z¨urich, Laboratorium f¨ur Physikalische Chemie, Vladimir-Prelog-Weg 2, CH-8093 Z¨urich,Switzerland (Dated: 17 October 2018) We discuss the partitioning of a quantum system by subsystem separation through unitary block- diagonalization (SSUB) applied to a Fock operator. For a one-particle Hilbert space, this separation can be formulated in a very general way. Therefore, it can be applied to very different partitionings ranging from those driven by features in the molecular structure (such as a solute surrounded by solvent molecules or an active site in an enzyme) to those that aim at an orbital separation (such as core-valence separation). Our framework embraces recent developments of Manby and Miller as well as older ones of Huzinaga and Cantu. Projector-based embedding is simplified and accelerated by SSUB. Moreover, it directly relates to decoupling approaches for relativistic four-component many-electron theory. For a Fock operator based on the Dirac one-electron Hamiltonian, one would like to separate the so-called positronic (negative-energy) states from the electronic bound and continuum states. The exact two-component (X2C) approach developed for this purpose becomes a special case of the general SSUB framework and may therefore be viewed as a system- environment decoupling approach. Moreover, for SSUB there exists no restriction with respect to the number of subsystems that are generated | in the limit, decoupling of all single-particle states is recovered, which represents exact diagonalization of the problem. -
A New Scalable Parallel Algorithm for Fock Matrix Construction
A New Scalable Parallel Algorithm for Fock Matrix Construction Xing Liu Aftab Patel Edmond Chow School of Computational Science and Engineering College of Computing, Georgia Institute of Technology Atlanta, Georgia, 30332, USA [email protected], [email protected], [email protected] Abstract—Hartree-Fock (HF) or self-consistent field (SCF) ber of independent tasks and using a centralized dynamic calculations are widely used in quantum chemistry, and are scheduler for scheduling them on the available processes. the starting point for accurate electronic correlation methods. Communication costs are reduced by defining tasks that Existing algorithms and software, however, may fail to scale for large numbers of cores of a distributed machine, particularly in increase data reuse, which reduces communication volume, the simulation of moderately-sized molecules. In existing codes, and consequently communication cost. This approach suffers HF calculations are divided into tasks. Fine-grained tasks are from a few problems. First, because scheduling is completely better for load balance, but coarse-grained tasks require less dynamic, the mapping of tasks to processes is not known communication. In this paper, we present a new parallelization in advance, and data reuse suffers. Second, the centralized of HF calculations that addresses this trade-off: we use fine- grained tasks to balance the computation among large numbers dynamic scheduler itself could become a bottleneck when of cores, but we also use a scheme to assign tasks to processes to scaling up to a large system [14]. Third, coarse tasks reduce communication. We specifically focus on the distributed which reduce communication volume may lead to poor load construction of the Fock matrix arising in the HF algorithm, balance when the ratio of tasks to processes is close to one. -
Domain Decomposition and Electronic Structure Computations: a Promising Approach
Domain Decomposition and Electronic Structure Computations: A Promising Approach G. Bencteux1,4, M. Barrault1, E. Canc`es2,4, W. W. Hager3, and C. Le Bris2,4 1 EDF R&D, 1 avenue du G´en´eral de Gaulle, 92141 Clamart Cedex, France {guy.bencteux,maxime.barrault}@edf.fr 2 CERMICS, Ecole´ Nationale des Ponts et Chauss´ees, 6 & 8, avenue Blaise Pascal, Cit´eDescartes, 77455 Marne-La-Vall´ee Cedex 2, France, {cances,lebris}@cermics.enpc.fr 3 Department of Mathematics, University of Florida, Gainesville, FL 32611-8105, USA, [email protected] 4 INRIA Rocquencourt, MICMAC project, Domaine de Voluceau, B.P. 105, 78153 Le Chesnay Cedex, FRANCE Summary. We describe a domain decomposition approach applied to the spe- cific context of electronic structure calculations. The approach has been introduced in [BCH06]. We survey here the computational context, and explain the peculiari- ties of the approach as compared to problems of seemingly the same type in other engineering sciences. Improvements of the original approach presented in [BCH06], including algorithmic refinements and effective parallel implementation, are included here. Test cases supporting the interest of the method are also reported. It is our pleasure and an honor to dedicate this contribution to Olivier Pironneau, on the occasion of his sixtieth birthday. With admiration, respect and friendship. 1 Introduction and Motivation 1.1 General Context Numerical simulation is nowadays an ubiquituous tool in materials science, chemistry and biology. Design of new materials, irradiation induced damage, drug design, protein folding are instances of applications of numerical sim- ulation. For convenience we now briefly present the context of the specific computational problem under consideration in the present article. -
Matrix Algebra for Quantum Chemistry
Matrix Algebra for Quantum Chemistry EMANUEL H. RUBENSSON Doctoral Thesis in Theoretical Chemistry Stockholm, Sweden 2008 Matrix Algebra for Quantum Chemistry Doctoral Thesis c Emanuel Härold Rubensson, 2008 TRITA-BIO-Report 2008:23 ISBN 978-91-7415-160-2 ISSN 1654-2312 Printed by Universitetsservice US AB, Stockholm, Sweden 2008 Typeset in LATEX by the author. Abstract This thesis concerns methods of reduced complexity for electronic structure calculations. When quantum chemistry methods are applied to large systems, it is important to optimally use computer resources and only store data and perform operations that contribute to the overall accuracy. At the same time, precarious approximations could jeopardize the reliability of the whole calcu- lation. In this thesis, the selfconsistent eld method is seen as a sequence of rotations of the occupied subspace. Errors coming from computational ap- proximations are characterized as erroneous rotations of this subspace. This viewpoint is optimal in the sense that the occupied subspace uniquely denes the electron density. Errors should be measured by their impact on the over- all accuracy instead of by their constituent parts. With this point of view, a mathematical framework for control of errors in HartreeFock/KohnSham calculations is proposed. A unifying framework is of particular importance when computational approximations are introduced to eciently handle large systems. An important operation in HartreeFock/KohnSham calculations is the calculation of the density matrix for a given Fock/KohnSham matrix. In this thesis, density matrix purication is used to compute the density matrix with time and memory usage increasing only linearly with system size. The forward error of purication is analyzed and schemes to control the forward error are proposed. -
Problem Set #1 Solutions
PROBLEM SET #2 SOLUTIONS by Robert A. DiStasio Jr. Q1. 1-particle density matrices and idempotency. (a) A matrix M is said to be idempotent if M 2 = M . Show from the basic definition that the HF density matrix is idempotent when expressed in an orthonormal basis. An element of the HF density matrix is given as (neglecting the factor of two for the restricted closed-shell HF density matrix): * PCCμν = ∑ μi ν i . (1) i In matrix form, (1) is simply equivalent to † PCC= occ occ (2) where Cocc is the occupied block of the MO coefficient matrix. To reformulate the nonorthogonal Roothaan-Hall equations FC= SCε (3) into the preferred eigenvalue problem ~~ ~ FC= Cε (4) the AO basis must be orthogonalized. There are several ways to orthogonalize the AO basis, but I will only discuss symmetric orthogonalization, as this is arguably the most often used procedure in computational quantum chemistry. In the symmetric orthogonalization procedure, the MO coefficient matrix in (3) is recast as ~ + 1 − 1 ~ CSCCSC=2 ⇔ = 2 (5) which can be substituted into (3) yielding the eigenvalue form of the Roothaan-Hall equations in (4) after the following algebraic manipulation: FC = SCε − 1 ~ − 1 ~ FSCSSC( 2 )(= 2 )ε − 1 − 1 ~ −1 − 1 ~ SFSCSSSC2 ( 2 )(= 2 2 )ε . (6) −1 − 1 ~ −1 − 1 ~ ()S2 FS2 C= () S2 SS2 Cε ~~ ~ FC = Cε ~ ~ −1 − 1 −1 − 1 In (6), the dressed Fock matrix, F , was clearly defined as F≡ S2 FS 2 and S2 SS2 = S 0 =1 was used. In an orthonormal basis, therefore, the density matrix of (2) takes on the following form: ~ ~† PCC= occ occ . -
Relativistic Cholesky-Decomposed Density Matrix
Relativistic Cholesky-decomposed density matrix MP2 Benjamin Helmich-Paris,1, 2, a) Michal Repisky,3 and Lucas Visscher2 1)Max-Planck-Institut f¨urKohlenforschung, Kaiser-Wilhelm-Platz 1, D-45470 M¨ulheiman der Ruhr 2)Section of Theoretical Chemistry, Vrije Universiteit Amsterdam, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands 3)Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry, UiT The Arctic University of Norway, N-9037 Tromø Norway (Dated: 15 October 2018) In the present article, we introduce the relativistic Cholesky-decomposed density (CDD) matrix second-order Møller–Plesset perturbation theory (MP2) energies. The working equations are formulated in terms of the usual intermediates of MP2 when employing the resolution-of-the-identity approximation (RI) for two-electron inte- grals. Those intermediates are obtained by substituting the occupied and vir- tual quaternion pseudo-density matrices of our previously proposed two-component atomic orbital-based MP2 (J. Chem. Phys. 145, 014107 (2016)) by the corresponding pivoted quaternion Cholesky factors. While working within the Kramers-restricted formalism, we obtain a formal spin-orbit overhead of 16 and 28 for the Coulomb and exchange contribution to the 2C MP2 correlation energy, respectively, compared to a non-relativistic (NR) spin-free CDD-MP2 implementation. This compact quaternion formulation could also be easily explored in any other algorithm to compute the 2C MP2 energy. The quaternion Cholesky factors become sparse for large molecules and, with a block-wise screening, block sparse-matrix multiplication algorithm, we observed an effective quadratic scaling of the total wall time for heavy-element con- taining linear molecules with increasing system size. -
Density Functional Theory
Density Functional Theory Fundamentals Video V.i Density Functional Theory: New Developments Donald G. Truhlar Department of Chemistry, University of Minnesota Support: AFOSR, NSF, EMSL Why is electronic structure theory important? Most of the information we want to know about chemistry is in the electron density and electronic energy. dipole moment, Born-Oppenheimer charge distribution, approximation 1927 ... potential energy surface molecular geometry barrier heights bond energies spectra How do we calculate the electronic structure? Example: electronic structure of benzene (42 electrons) Erwin Schrödinger 1925 — wave function theory All the information is contained in the wave function, an antisymmetric function of 126 coordinates and 42 electronic spin components. Theoretical Musings! ● Ψ is complicated. ● Difficult to interpret. ● Can we simplify things? 1/2 ● Ψ has strange units: (prob. density) , ● Can we not use a physical observable? ● What particular physical observable is useful? ● Physical observable that allows us to construct the Hamiltonian a priori. How do we calculate the electronic structure? Example: electronic structure of benzene (42 electrons) Erwin Schrödinger 1925 — wave function theory All the information is contained in the wave function, an antisymmetric function of 126 coordinates and 42 electronic spin components. Pierre Hohenberg and Walter Kohn 1964 — density functional theory All the information is contained in the density, a simple function of 3 coordinates. Electronic structure (continued) Erwin Schrödinger -
Chapter 18 the Single Slater Determinant Wavefunction (Properly Spin and Symmetry Adapted) Is the Starting Point of the Most Common Mean Field Potential
Chapter 18 The single Slater determinant wavefunction (properly spin and symmetry adapted) is the starting point of the most common mean field potential. It is also the origin of the molecular orbital concept. I. Optimization of the Energy for a Multiconfiguration Wavefunction A. The Energy Expression The most straightforward way to introduce the concept of optimal molecular orbitals is to consider a trial wavefunction of the form which was introduced earlier in Chapter 9.II. The expectation value of the Hamiltonian for a wavefunction of the multiconfigurational form Y = S I CIF I , where F I is a space- and spin-adapted CSF which consists of determinental wavefunctions |f I1f I2f I3...fIN| , can be written as: E =S I,J = 1, M CICJ < F I | H | F J > . The spin- and space-symmetry of the F I determine the symmetry of the state Y whose energy is to be optimized. In this form, it is clear that E is a quadratic function of the CI amplitudes CJ ; it is a quartic functional of the spin-orbitals because the Slater-Condon rules express each < F I | H | F J > CI matrix element in terms of one- and two-electron integrals < f i | f | f j > and < f if j | g | f kf l > over these spin-orbitals. B. Application of the Variational Method The variational method can be used to optimize the above expectation value expression for the electronic energy (i.e., to make the functional stationary) as a function of the CI coefficients CJ and the LCAO-MO coefficients {Cn,i} that characterize the spin- orbitals. -
Arxiv:1902.07690V2 [Cond-Mat.Str-El] 12 Apr 2019
Symmetry Projected Jastrow Mean-field Wavefunction in Variational Monte Carlo Ankit Mahajan1, ∗ and Sandeep Sharma1, y 1Department of Chemistry and Biochemistry, University of Colorado Boulder, Boulder, CO 80302, USA We extend our low-scaling variational Monte Carlo (VMC) algorithm to optimize the symmetry projected Jastrow mean field (SJMF) wavefunctions. These wavefunctions consist of a symmetry- projected product of a Jastrow and a general broken-symmetry mean field reference. Examples include Jastrow antisymmetrized geminal power (JAGP), Jastrow-Pfaffians, and resonating valence bond (RVB) states among others, all of which can be treated with our algorithm. We will demon- strate using benchmark systems including the nitrogen molecule, a chain of hydrogen atoms, and 2-D Hubbard model that a significant amount of correlation can be obtained by optimizing the energy of the SJMF wavefunction. This can be achieved at a relatively small cost when multiple symmetries including spin, particle number, and complex conjugation are simultaneously broken and projected. We also show that reduced density matrices can be calculated using the optimized wavefunctions, which allows us to calculate other observables such as correlation functions and will enable us to embed the VMC algorithm in a complete active space self-consistent field (CASSCF) calculation. 1. INTRODUCTION Recently, we have demonstrated that this cost discrep- ancy can be removed by introducing three algorithmic 16 Variational Monte Carlo (VMC) is one of the most ver- improvements . The most significant of these allowed us satile methods available for obtaining the wavefunction to efficiently screen the two-electron integrals which are and energy of a system.1{7 Compared to deterministic obtained by projecting the ab-initio Hamiltonian onto variational methods, VMC allows much greater flexibil- a finite orbital basis. -
Lecture 16 Hartree Fock Implementation
Quantum Chemistry Lecture 16 Implementation of Hartree-Fock Theory NC State University The linear combination of atomic orbitals (LCAO) Calculations of the energy and properties of molecules requires hydrogen-like wave functions on each of the nuclei. The Hartree-Fock method begins with assumption That molecular orbitals can be formed as a linear combination of atomic orbitals. The basis functions fm are hydrogen-like atomic orbitals that have been optimized by a variational procedure. The HF procedure is a variational procedure to minimize the coefficients Cmi. Note that we use the index m for atomic orbitals and i or j for molecular orbitals. Common types of atomic orbitals Slater-type orbitals (STOs) The STOs are like hydrogen atom wave functions. The problem with STOs arises in multicenter integrals. The Coulomb and exchange integrals involve electrons on different nuclei and so the distance r has a different origin. Gaussian-type orbitals (GTOs) Gaussian orbitals can be used to mimic the shape of exponentials, i.e. the form of the solutions for the hydrogen atom. Multicenter Gaussian integrals can be solved analytically. STOs vs GTOs GTOs are mathematically easy to work with STOs vs GTOs GTOs are mathematically easy to work with, but the shape of a Gaussian is not that similar to that of an exponential. STOs vs GTOs Therefore, linear combinations of Gaussians are used to imitate the shape of an exponential. Shown is a representation of the 3-Gaussian model of a STO. Double-zeta basis sets Since the remaining atoms have a different exponential dependence than hydrogen it is often convenient to include more parameters. -
Fock Matrix Construction for Large Systems
Fock Matrix Construction for Large Systems Elias Rudberg Theoretical Chemistry Royal Institute of Technology Stockholm 2006 Fock Matrix Construction for Large Systems Licentiate thesis c Elias Rudberg, 2006 ISBN 91-7178-535-3 ISBN 978-91-7178-535-0 Printed by Universitetsservice US AB, Stockholm, Sweden, 2006 Typeset in LATEX by the author Abstract This licentiate thesis deals with quantum chemistry methods for large systems. In particu- lar, the thesis focuses on the efficient construction of the Coulomb and exchange matrices which are important parts of the Fock matrix in Hartree–Fock calculations. The meth- ods described are also applicable in Kohn–Sham Density Functional Theory calculations, where the Coulomb and exchange matrices are parts of the Kohn–Sham matrix. Screening techniques for reducing the computational complexity of both Coulomb and exchange com- putations are discussed, as well as the fast multipole method, used for efficient computation of the Coulomb matrix. The thesis also discusses how sparsity in the matrices occurring in Hartree–Fock and Kohn– Sham Density Functional Theory calculations can be used to achieve more efficient storage of matrices as well as more efficient operations on them. As an example of a possible type of application, the thesis includes a theoretical study of Heisenberg exchange constants, using unrestricted Kohn–Sham Density Functional Theory calculations. iii Preface The work presented in this thesis has been carried out at the Department of Theoretical Chemistry, Royal Institute of Technology, Stockholm, Sweden. List of papers included in the thesis Paper 1 Efficient implementation of the fast multipole method, Elias Rudberg and Pawe l Sa lek,J. -
Iia. Systems of Many Electrons
EE5 in 2008 Lecture notes Univ. of Iceland Hannes J´onsson IIa. Systems of many electrons Exchange of particle labels Consider a system of n identical particles. By identical particles we mean that all intrinsic properties of the particles are the same, such as mass, spin, charge, etc. Figure II.1 A pairwise permutation of the labels on identical particles. In classical mechanics we can in principle follow the trajectory of each individual particle. They are, therefore, distinguishable even though they are identical. In quantum mechanics the particles are not distinguishable if they are close enough or if they interact strongly enough. The quantum mechanical wave function must reflect this fact. When the particles are indistinguishable, the act of labeling the particles is an arbi- trary operation without physical significance. Therefore, all observables must be unaffected by interchange of particle labels. The operators are said to be symmetric under interchange of labels. The Hamiltonian, for example, is symmetric, since the intrinsic properties of all the particles are the same. Let ψ(1, 2,...,n) be a solution to the Schr¨odinger equation, (Here n represents all the coordinates, both spatial and spin, of the particle labeled with n). Let Pij be an operator that permutes (or ‘exchanges’) the labels i and j: Pijψ(1, 2,...,i,...,j,...,n) = ψ(1, 2,...,j,...,i,...,n). This means that the function Pij ψ depends on the coordinates of particle j in the same way that ψ depends on the coordinates of particle i. Since H is symmetric under interchange of labels: H(Pijψ) = Pij Hψ, i.e., [Pij,H]=0.