Parallel Numerical Algorithms Chapter 5 – Eigenvalue Problems Section 5.2 – Eigenvalue Computation
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A Distributed and Parallel Asynchronous Unite and Conquer Method to Solve Large Scale Non-Hermitian Linear Systems Xinzhe Wu, Serge Petiton
A Distributed and Parallel Asynchronous Unite and Conquer Method to Solve Large Scale Non-Hermitian Linear Systems Xinzhe Wu, Serge Petiton To cite this version: Xinzhe Wu, Serge Petiton. A Distributed and Parallel Asynchronous Unite and Conquer Method to Solve Large Scale Non-Hermitian Linear Systems. HPC Asia 2018 - International Conference on High Performance Computing in Asia-Pacific Region, Jan 2018, Tokyo, Japan. 10.1145/3149457.3154481. hal-01677110 HAL Id: hal-01677110 https://hal.archives-ouvertes.fr/hal-01677110 Submitted on 8 Jan 2018 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. A Distributed and Parallel Asynchronous Unite and Conquer Method to Solve Large Scale Non-Hermitian Linear Systems Xinzhe WU Serge G. Petiton Maison de la Simulation, USR 3441 Maison de la Simulation, USR 3441 CRIStAL, UMR CNRS 9189 CRIStAL, UMR CNRS 9189 Université de Lille 1, Sciences et Technologies Université de Lille 1, Sciences et Technologies F-91191, Gif-sur-Yvette, France F-91191, Gif-sur-Yvette, France [email protected] [email protected] ABSTRACT the iteration number. These methods are already well implemented Parallel Krylov Subspace Methods are commonly used for solv- in parallel to profit from the great number of computation cores ing large-scale sparse linear systems. -
Efficient Algorithms for High-Dimensional Eigenvalue
Efficient Algorithms for High-dimensional Eigenvalue Problems by Zhe Wang Department of Mathematics Duke University Date: Approved: Jianfeng Lu, Advisor Xiuyuan Cheng Jonathon Mattingly Weitao Yang Dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy in the Department of Mathematics in the Graduate School of Duke University 2020 ABSTRACT Efficient Algorithms for High-dimensional Eigenvalue Problems by Zhe Wang Department of Mathematics Duke University Date: Approved: Jianfeng Lu, Advisor Xiuyuan Cheng Jonathon Mattingly Weitao Yang An abstract of a dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy in the Department of Mathematics in the Graduate School of Duke University 2020 Copyright © 2020 by Zhe Wang All rights reserved Abstract The eigenvalue problem is a traditional mathematical problem and has a wide appli- cations. Although there are many algorithms and theories, it is still challenging to solve the leading eigenvalue problem of extreme high dimension. Full configuration interaction (FCI) problem in quantum chemistry is such a problem. This thesis tries to understand some existing algorithms of FCI problem and propose new efficient algorithms for the high-dimensional eigenvalue problem. In more details, we first es- tablish a general framework of inexact power iteration and establish the convergence theorem of full configuration interaction quantum Monte Carlo (FCIQMC) and fast randomized iteration (FRI). Second, we reformulate the leading eigenvalue problem as an optimization problem, then compare the show the convergence of several coor- dinate descent methods (CDM) to solve the leading eigenvalue problem. Third, we propose a new efficient algorithm named Coordinate descent FCI (CDFCI) based on coordinate descent methods to solve the FCI problem, which produces some state-of- the-art results. -
Implicitly Restarted Arnoldi/Lanczos Methods for Large Scale Eigenvalue Calculations
NASA Contractor Report 198342 /" ICASE Report No. 96-40 J ICA IMPLICITLY RESTARTED ARNOLDI/LANCZOS METHODS FOR LARGE SCALE EIGENVALUE CALCULATIONS Danny C. Sorensen NASA Contract No. NASI-19480 May 1996 Institute for Computer Applications in Science and Engineering NASA Langley Research Center Hampton, VA 23681-0001 Operated by Universities Space Research Association National Aeronautics and Space Administration Langley Research Center Hampton, Virginia 23681-0001 IMPLICITLY RESTARTED ARNOLDI/LANCZOS METHODS FOR LARGE SCALE EIGENVALUE CALCULATIONS Danny C. Sorensen 1 Department of Computational and Applied Mathematics Rice University Houston, TX 77251 sorensen@rice, edu ABSTRACT Eigenvalues and eigenfunctions of linear operators are important to many areas of ap- plied mathematics. The ability to approximate these quantities numerically is becoming increasingly important in a wide variety of applications. This increasing demand has fu- eled interest in the development of new methods and software for the numerical solution of large-scale algebraic eigenvalue problems. In turn, the existence of these new methods and software, along with the dramatically increased computational capabilities now avail- able, has enabled the solution of problems that would not even have been posed five or ten years ago. Until very recently, software for large-scale nonsymmetric problems was virtually non-existent. Fortunately, the situation is improving rapidly. The purpose of this article is to provide an overview of the numerical solution of large- scale algebraic eigenvalue problems. The focus will be on a class of methods called Krylov subspace projection methods. The well-known Lanczos method is the premier member of this class. The Arnoldi method generalizes the Lanczos method to the nonsymmetric case. -
Krylov Subspaces
Lab 1 Krylov Subspaces Lab Objective: Discuss simple Krylov Subspace Methods for finding eigenvalues and show some interesting applications. One of the biggest difficulties in computational linear algebra is the amount of memory needed to store a large matrix and the amount of time needed to read its entries. Methods using Krylov subspaces avoid this difficulty by studying how a matrix acts on vectors, making it unnecessary in many cases to create the matrix itself. More specifically, we can construct a Krylov subspace just by knowing how a linear transformation acts on vectors, and with these subspaces we can closely approximate eigenvalues of the transformation and solutions to associated linear systems. The Arnoldi iteration is an algorithm for finding an orthonormal basis of a Krylov subspace. Its outputs can also be used to approximate the eigenvalues of the original matrix. The Arnoldi Iteration The order-N Krylov subspace of A generated by x is 2 n−1 Kn(A; x) = spanfx;Ax;A x;:::;A xg: If the vectors fx;Ax;A2x;:::;An−1xg are linearly independent, then they form a basis for Kn(A; x). However, this basis is usually far from orthogonal, and hence computations using this basis will likely be ill-conditioned. One way to find an orthonormal basis for Kn(A; x) would be to use the modi- fied Gram-Schmidt algorithm from Lab TODO on the set fx;Ax;A2x;:::;An−1xg. More efficiently, the Arnold iteration integrates the creation of fx;Ax;A2x;:::;An−1xg with the modified Gram-Schmidt algorithm, returning an orthonormal basis for Kn(A; x). -
Iterative Methods for Linear System
Iterative methods for Linear System JASS 2009 Student: Rishi Patil Advisor: Prof. Thomas Huckle Outline ●Basics: Matrices and their properties Eigenvalues, Condition Number ●Iterative Methods Direct and Indirect Methods ●Krylov Subspace Methods Ritz Galerkin: CG Minimum Residual Approach : GMRES/MINRES Petrov-Gaelerkin Method: BiCG, QMR, CGS 1st April JASS 2009 2 Basics ●Linear system of equations Ax = b ●A Hermitian matrix (or self-adjoint matrix ) is a square matrix with complex entries which is equal to its own conjugate transpose, 3 2 + i that is, the element in the ith row and jth column is equal to the A = complex conjugate of the element in the jth row and ith column, for 2 − i 1 all indices i and j • Symmetric if a ij = a ji • Positive definite if, for every nonzero vector x XTAx > 0 • Quadratic form: 1 f( x) === xTAx −−− bTx +++ c 2 ∂ f( x) • Gradient of Quadratic form: ∂x 1 1 1 f' (x) = ⋮ = ATx + Ax − b ∂ 2 2 f( x) ∂xn 1st April JASS 2009 3 Various quadratic forms Positive-definite Negative-definite matrix matrix Singular Indefinite positive-indefinite matrix matrix 1st April JASS 2009 4 Various quadratic forms 1st April JASS 2009 5 Eigenvalues and Eigenvectors For any n×n matrix A, a scalar λ and a nonzero vector v that satisfy the equation Av =λv are said to be the eigenvalue and the eigenvector of A. ●If the matrix is symmetric , then the following properties hold: (a) the eigenvalues of A are real (b) eigenvectors associated with distinct eigenvalues are orthogonal ●The matrix A is positive definite (or positive semidefinite) if and only if all eigenvalues of A are positive (or nonnegative). -
A Parallel Lanczos Algorithm for Eigensystem Calculation
A Parallel Lanczos Algorithm for Eigensystem Calculation Hans-Peter Kersken / Uwe Küster Eigenvalue problems arise in many fields of physics and engineering science for example in structural engineering from prediction of dynamic stability of structures or vibrations of a fluid in a closed cavity. Their solution consumes a large amount of memory and CPU time if more than very few (1-5) vibrational modes are desired. Both make the problem a natural candidate for parallel processing. Here we shall present some aspects of the solution of the generalized eigenvalue problem on parallel architectures with distributed memory. The research was carried out as a part of the EC founded project ACTIVATE. This project combines various activities to increase the performance vibro-acoustic software. It brings together end users form space, aviation, and automotive industry with software developers and numerical analysts. Introduction The algorithm we shall describe in the next sections is based on the Lanczos algorithm for solving large sparse eigenvalue problems. It became popular during the past two decades because of its superior convergence properties compared to more traditional methods like inverse vector iteration. Some experiments with an new algorithm described in [Bra97] showed that it is competitive with the Lanczos algorithm only if very few eigenpairs are needed. Therefore we decided to base our implementation on the Lanczos algorithm. However, when implementing the Lanczos algorithm one has to pay attention to some subtle algorithmic details. A state of the art algorithm is described in [Gri94]. On parallel architectures further problems arise concerning the robustness of the algorithm. We implemented the algorithm almost entirely by using numerical libraries. -
Implicitly Restarted Arnoldi/Lanczos Methods for Large Scale Eigenvalue Calculations
https://ntrs.nasa.gov/search.jsp?R=19960048075 2020-06-16T03:31:45+00:00Z NASA Contractor Report 198342 /" ICASE Report No. 96-40 J ICA IMPLICITLY RESTARTED ARNOLDI/LANCZOS METHODS FOR LARGE SCALE EIGENVALUE CALCULATIONS Danny C. Sorensen NASA Contract No. NASI-19480 May 1996 Institute for Computer Applications in Science and Engineering NASA Langley Research Center Hampton, VA 23681-0001 Operated by Universities Space Research Association National Aeronautics and Space Administration Langley Research Center Hampton, Virginia 23681-0001 IMPLICITLY RESTARTED ARNOLDI/LANCZOS METHODS FOR LARGE SCALE EIGENVALUE CALCULATIONS Danny C. Sorensen 1 Department of Computational and Applied Mathematics Rice University Houston, TX 77251 sorensen@rice, edu ABSTRACT Eigenvalues and eigenfunctions of linear operators are important to many areas of ap- plied mathematics. The ability to approximate these quantities numerically is becoming increasingly important in a wide variety of applications. This increasing demand has fu- eled interest in the development of new methods and software for the numerical solution of large-scale algebraic eigenvalue problems. In turn, the existence of these new methods and software, along with the dramatically increased computational capabilities now avail- able, has enabled the solution of problems that would not even have been posed five or ten years ago. Until very recently, software for large-scale nonsymmetric problems was virtually non-existent. Fortunately, the situation is improving rapidly. The purpose of this article is to provide an overview of the numerical solution of large- scale algebraic eigenvalue problems. The focus will be on a class of methods called Krylov subspace projection methods. The well-known Lanczos method is the premier member of this class. -
Exact Diagonalization of Quantum Lattice Models on Coprocessors
Exact diagonalization of quantum lattice models on coprocessors T. Siro∗, A. Harju Aalto University School of Science, P.O. Box 14100, 00076 Aalto, Finland Abstract We implement the Lanczos algorithm on an Intel Xeon Phi coprocessor and compare its performance to a multi-core Intel Xeon CPU and an NVIDIA graphics processor. The Xeon and the Xeon Phi are parallelized with OpenMP and the graphics processor is programmed with CUDA. The performance is evaluated by measuring the execution time of a single step in the Lanczos algorithm. We study two quantum lattice models with different particle numbers, and conclude that for small systems, the multi-core CPU is the fastest platform, while for large systems, the graphics processor is the clear winner, reaching speedups of up to 7.6 compared to the CPU. The Xeon Phi outperforms the CPU with sufficiently large particle number, reaching a speedup of 2.5. Keywords: Tight binding, Hubbard model, exact diagonalization, GPU, CUDA, MIC, Xeon Phi 1. Introduction hopping amplitude is denoted by t. The tight-binding model describes free electrons hopping around a lattice, and it gives a In recent years, there has been tremendous interest in utiliz- crude approximation of the electronic properties of a solid. The ing coprocessors in scientific computing, including condensed model can be made more realistic by adding interactions, such matter physics[1, 2, 3, 4]. Most of the work has been done as on-site repulsion, which results in the well-known Hubbard on graphics processing units (GPU), resulting in impressive model[9]. In our basis, however, such interaction terms are di- speedups compared to CPUs in problems that exhibit high data- agonal, rendering their effect on the computational complexity parallelism and benefit from the high throughput of the GPU. -
An Implementation of a Generalized Lanczos Procedure for Structural Dynamic Analysis on Distributed Memory Computers
NU~IERICAL ANALYSIS PROJECT AUGUST 1992 MANUSCRIPT ,NA-92-09 An Implementation of a Generalized Lanczos Procedure for Structural Dynamic Analysis on Distributed Memory Computers . bY David R. Mackay and Kincho H. Law NUMERICAL ANALYSIS PROJECT COMPUTER SCIENCE DEPARTMENT STANFORD UNIVERSITY STANFORD, CALIFORNIA 94305 An Implementation of a Generalized Lanczos Procedure for Structural Dynamic Analysis on Distributed Memory Computers’ David R. Mackay and Kincho H. Law Department of Civil Engineering Stanford University Stanford, CA 94305-4020 Abstract This paper describes a parallel implementation of a generalized Lanczos procedure for struc- tural dynamic analysis on a distributed memory parallel computer. One major cost of the gener- alized Lanczos procedure is the factorization of the (shifted) stiffness matrix and the forward and backward solution of triangular systems. In this paper, we discuss load assignment of a sparse matrix and propose a strategy for inverting the principal block submatrix factors to facilitate the forward and backward solution of triangular systems. We also discuss the different strategies in the implementation of mass matrix-vector multiplication on parallel computer and how they are used in the Lanczos procedure. The Lanczos procedure implemented includes partial and external selective reorthogonalizations and spectral shifts. Experimental results are presented to illustrate the effectiveness of the parallel generalized Lanczos procedure. The issues of balancing the com- putations among the basic steps of the Lanczos procedure on distributed memory computers are discussed. IThis work is sponsored by the National Science Foundation grant number ECS-9003107, and the Army Research Office grant number DAAL-03-91-G-0038. Contents List of Figures ii . -
Accelerated Stochastic Power Iteration
Accelerated Stochastic Power Iteration CHRISTOPHER DE SAy BRYAN HEy IOANNIS MITLIAGKASy CHRISTOPHER RE´ y PENG XU∗ yDepartment of Computer Science, Stanford University ∗Institute for Computational and Mathematical Engineering, Stanford University cdesa,bryanhe,[email protected], [email protected], [email protected] July 11, 2017 Abstract Principal component analysis (PCA) is one of the most powerful tools in machine learning. The simplest method for PCA, the power iteration, requires O(1=∆) full-data passes to recover the principal component of a matrix withp eigen-gap ∆. Lanczos, a significantly more complex method, achieves an accelerated rate of O(1= ∆) passes. Modern applications, however, motivate methods that only ingest a subset of available data, known as the stochastic setting. In the online stochastic setting, simple 2 2 algorithms like Oja’s iteration achieve the optimal sample complexity O(σ =p∆ ). Unfortunately, they are fully sequential, and also require O(σ2=∆2) iterations, far from the O(1= ∆) rate of Lanczos. We propose a simple variant of the power iteration with an added momentum term, that achieves both the optimal sample and iteration complexity.p In the full-pass setting, standard analysis shows that momentum achieves the accelerated rate, O(1= ∆). We demonstrate empirically that naively applying momentum to a stochastic method, does not result in acceleration. We perform a novel, tight variance analysis that reveals the “breaking-point variance” beyond which this acceleration does not occur. By combining this insight with modern variance reduction techniques, we construct stochastic PCAp algorithms, for the online and offline setting, that achieve an accelerated iteration complexity O(1= ∆). -
The Influence of Orthogonality on the Arnoldi Method
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Elsevier - Publisher Connector Linear Algebra and its Applications 309 (2000) 307±323 www.elsevier.com/locate/laa The in¯uence of orthogonality on the Arnoldi method T. Braconnier *, P. Langlois, J.C. Rioual IREMIA, Universite de la Reunion, DeÂpartement de Mathematiques et Informatique, BP 7151, 15 Avenue Rene Cassin, 97715 Saint-Denis Messag Cedex 9, La Reunion, France Received 1 February 1999; accepted 22 May 1999 Submitted by J.L. Barlow Abstract Many algorithms for solving eigenproblems need to compute an orthonormal basis. The computation is commonly performed using a QR factorization computed using the classical or the modi®ed Gram±Schmidt algorithm, the Householder algorithm, the Givens algorithm or the Gram±Schmidt algorithm with iterative reorthogonalization. For the eigenproblem, although textbooks warn users about the possible instability of eigensolvers due to loss of orthonormality, few theoretical results exist. In this paper we prove that the loss of orthonormality of the computed basis can aect the reliability of the computed eigenpair when we use the Arnoldi method. We also show that the stopping criterion based on the backward error and the value computed using the Arnoldi method can dier because of the loss of orthonormality of the computed basis of the Krylov subspace. We also give a bound which quanti®es this dierence in terms of the loss of orthonormality. Ó 2000 Elsevier Science Inc. All rights reserved. Keywords: QR factorization; Backward error; Eigenvalues; Arnoldi method 1. Introduction The aim of the most commonly used eigensolvers is to approximate a basis of an invariant subspace associated with some eigenvalues. -
Numerical Linear Algebra Program Lecture 4 Basic Methods For
Program Lecture 4 Numerical Linear Algebra • Basic methods for eigenproblems. Basic iterative methods • Power method • Shift-and-invert Power method • QR algorithm • Basic iterative methods for linear systems • Richardson’s method • Jacobi, Gauss-Seidel and SOR • Iterative refinement Gerard Sleijpen and Martin van Gijzen • Steepest decent and the Minimal residual method October 5, 2016 1 October 5, 2016 2 National Master Course National Master Course Delft University of Technology Basic methods for eigenproblems The Power method The eigenvalue problem The Power method is the classical method to compute in modulus largest eigenvalue and associated eigenvector of a Av = λv matrix. can not be solved in a direct way for problems of order > 4, since Multiplying with a matrix amplifies strongest the eigendirection the eigenvalues are the roots of the characteristic equation corresponding to the in modulus largest eigenvalues. det(A − λI) = 0. Successively multiplying and scaling (to avoid overflow or underflow) yields a vector in which the direction of the largest Today we will discuss two iterative methods for solving the eigenvector becomes more and more dominant. eigenproblem. October 5, 2016 3 October 5, 2016 4 National Master Course National Master Course Algorithm Convergence (1) The Power method for an n × n matrix A. Let the n eigenvalues λi with eigenvectors vi, Avi = λivi, be n ordered such that |λ1| ≥ |λ2|≥ . ≥ |λn|. u0 ∈ C is given • Assume the eigenvectors v ,..., vn form a basis. for k = 1, 2, ... 1 • Assume |λ1| > |λ2|. uk = Auk−1 Each arbitrary starting vector u0 can be written as: uk = uk/kukk2 e(k) ∗ λ = uk−1uk u0 = α1v1 + α2v2 + ..