Questions tagged [preconditioning]
For questions regarding design and implementation of preconditioners for solving linear systems.
109
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Where can I find matrices and it's preconditioner for testing?
I want to find some kinds of matrices for testing my code such as GMRES , MINRES and so on. But I can't find some testing matrices and corresponding preconditioner to verify my program.
I know some ...
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38
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Hessian-free preconditioner for non linear least squares
I am solving a nonlinear least squares problem using Gauss Newton method. Due to the large dimension of the problem, I use the Hessian-free approach. As a linear solver I use either MINRES or CG. To ...
2
votes
1
answer
65
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ICCG negative residual products $r^TM^{-1}r$
I have a linear system $Ax=b$ resulting from a finite element discretization of the Poisson equation. I am applying an IC0 (incomplete Cholesky ($LDL^T$) with the same sparsity as the original matrix) ...
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3
votes
1
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Incomplete Cholesky preconditioner for CG efficiency
I am currently solving the harmonic equation using a P1 FEM discretisation. The resulting matrix $A$ is SPD and fairly sparse so I use a preconditioned conjugate gradients (CG) solver to find a ...
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1
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402
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When do not use preconditioners for sparse linear system of equations?
I'm implementing a solver of Finite Element Method, and to solve the linear system of equations I'm using gmres from MKL of Intel. Exists the option with and without a preconditioning. In what case it ...
- 493
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43
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Normalizing the right-hand side in Jacobi-preconditioned conjugate gradients
I have been reading the following paper: CG versus MINRES: An empirical comparison.
In it a conjugate gradient solver is applied to a system matrix $A$ Jacobi-preconditioned on both sides. ...
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1
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1
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103
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What is the difference between Adittive Schwarz as a preprocessor and a solver?
As we all know, the Additive Schwarz approach can be used as either solver or preconditioner, however, my question is, what is the difference between the two? In other words, how to use AS as solver, ...
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1
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119
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Preconditioning a least-squares problem?
I need to solve an equation system
$$
\begin{pmatrix}
A \\
I
\end{pmatrix}
x
=
\begin{pmatrix}
b_0\\b_1
\end{pmatrix}
$$
in the least-squares sense. Let's assume $I$ is the $n$-by-$n$ identity matrix, ...
- 3,058
2
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0
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101
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Confusion about preconditioner for incompressible Navier-Stokes equation with implicit-explicit method
Consider the time-dependent Navier-Stokes equation
$$u_t + (u \cdot \nabla) u - \Delta u + \nabla p = f$$
$$\operatorname{div}(u)=0$$
Looking at deal.ii tutorials, I've notice that there are ...
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1
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3
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156
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preconditioner for Laplace "without" boundary values
I'm looking at solving systems with the FEM discretization
$$
-\int_\Omega (\Delta u) v = \int_\Omega \nabla u \cdot \nabla v - \int_\Gamma (n\cdot\nabla u) v.
$$
without applying Dirichlet- or ...
- 3,058
3
votes
1
answer
211
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Preconditioning vs. regularization
I used to be more of a numerical linear algebra and computational science person, but recently, I've crossed into stats and machine learning.
For this discussion, let's focus on matrices that are not ...
- 281
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0
answers
75
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What is this QR-factorization-based preconditioning called?
I have recently started to delve into someone else's code, and there is a part in there I don't quite understand. The authors of the code use some form of pre-conditioning to speed up the optimization....
- 203
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votes
1
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40
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Automatic selection of the SLE solver and preconditioner during simulation
To simulate the physical process necessary to solve the arising systems of linear algebraic equations. The SLE matrix has a highly sparse form. There are a couple dozen non-zero elements in the string,...
2
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0
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"black box" preconditioner for shifted linear systems?
Does anyone know of any strategies for creating a preconditioner $P^{-1}_\sigma \approx (A+\sigma I)^{-1}$ given a preconditioner $P^{-1} \approx A^{-1}$, preferably such that the precomputation doesn'...
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1
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preconditioner for $u''(x)=\sin(x)$
I am interested in finding preconditioner to solve the problem for one dimensional problem $u''(x)=\sin(x), u(0)=u(1)=0$ using Dirichlet-Neumann method.
The preconditioner $M$ coming from Dirichlet-...
- 41
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Upper bound on condition number in linear preconditioning
I'm studying iterative methods for solving linear system, and I find the following setting in Wikipedia:
Consider a matrix splitting $A = M-N$, where $A,M,N$ are all symmetric and positive definite ...
- 11
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0
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Does incomplete LU preconditioning improve the asymptotic scaling of Krylov subspace methods?
It is well known that unpreconditioned Krylov subspace methods applied to the finite-difference-discretised Poisson equation with $n$ grid points per direction require $O(n \, |\log(\varepsilon)|)$ ...
- 405
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0
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69
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Preconditioning the $[1 \quad-2 \quad 1]$ Finite Difference matrix
Let $A$ be the well known tridiagonal matrix coming from the 1D Finite difference discretization of the Laplacian, with stencil $\frac{[1 \quad-2 \quad 1]}{h^2}$.
The system $Ax = b$ is very large, so ...
- 289
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votes
1
answer
270
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Non-negative least squares with very small numbers
(I have asked this question on StackOverflow previously but it has been pointed to me that CSSE or MSE could be more appropriate)
I have to solve a constrained optimization problem of the following ...
- 51
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1
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103
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Library to solve dense linear system with GMRES
I have a fortran 90 code and I want to solve a dense linear system with GMRES. I would prefer the restarted GMRES with preconditioning. Is there some library that you know of that I could use? Now I ...
- 43
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0
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137
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Solving saddle point problem having non-invertible top-left block with a PETSc nested matrix
My system is a symmetric FE problem with lagrange multipliers:
$Z=\begin{pmatrix}A & C^T \\ C & 0\end{pmatrix}$
The matrix $A$ is positive semi-definite, non-invertible. The whole matrix is ...
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Are there any other better methods than block diagnoal and block upper triangular precondtioner for saddle point problems?
For stokes problems,
$$
-\Delta \vec{u} + \nabla p =\vec{f},\qquad \nabla . \vec{u} = 0;
$$
with appropriate boundary conditions which guarantee there is a unique solution.
Using FDM or FEM, ...
- 951
1
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1
answer
52
views
Accelerating Conjugate Gradients fitting for small localized kernel (like cubic B-spline)
Question:
Is there some pre-conditioner for Conjugate-Gradient (CG) cheap enough, that it is worth using even if my operator is very local (i.e. already has a low number of non-zero elements), as it ...
- 867
3
votes
1
answer
223
views
Why do many people use FDM method to solve Stokes equations, i.e., saddle point matrix?
For numerical methods of the Stokes equations, with appropriate boundary:
$$-\nabla^{2} \vec{u}+\nabla p=\overrightarrow{0}$$
$$\nabla \cdot \vec{u}=0$$
one may use FDM (finite difference method) ...
- 951
3
votes
2
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426
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Why iterative method: AMG preconditioned PCG is slower than Matlab direct method 'A\b'?
Recently, I have met a question that
a saying goes that for large linear system: iterative methods are required because of memory problem of direct methods.
But when I implement some experiments ...
- 951
6
votes
1
answer
331
views
Iterative linear solver for "ugly" saddle point system
I am a graduate student majoring scientific computing. The numeric model I made caused a very ugly-looking saddle-point linear system. It is not symmetric at all and I will attach the sparsity pattern ...
1
vote
1
answer
137
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Iterative solution of ill-conditioned matrix systems
I want to solve a matrix system of the form $Ax=b$ where $A$ is ill-conditioned. The matrix system comes from a structural simulation problem which was discretized using finite elements. I do not have ...
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Why not use the preconditioned residual as termination criterion for preconditioned CG?
I have a Poisson equation with wildly varying material parameters (1 .. 1000), wildly varying element sizes (5 nm .. 100 um) and some quite anisotropic (tetrahedral) elements (100 nm x 100 um). I use (...
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3
votes
1
answer
249
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Optimality of block-Jacobi preconditioner
For a dense $N \times N$ matrix $A$, is the block-Jacobi preconditioner comprising the inverse of the diagonal blocks of $A$ the optimal block-diagonal preconditioner? Could there exist another matrix ...
- 653
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0
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Kinetic preconditioning
Publication arXiv:0804.2583 describes a method for doing self-consistent iteration without having to diagonalize the Hamiltonian operator at every step.
IX. PRECONDITIONING
As already mentioned, ...
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How to construct an effective preconditioner for this particular problem
A quick introduction to my problem
I am currently developing a method for simulation of water waves in three dimensions based on potential flow theory. The computational bottleneck of the method is ...
- 115
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1
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327
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Re-using LU factorization within iterative (?) setup for a sum of two matrices
So, I would love to make at least some use of my preexisting data, no matter how small, and just out of ideas. Maybe I am just a prisoner of a Kahneman-like theatre-ticket paradox, and don't know ...
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PCJACOBI works but the default PCBJACOBI failed in PETSc
I am using PETSc and libmesh to solve a simple linear elastic problem with quite complicated geometry, using linear tetrahedral elements. I am always using the KSP CG as the solver.
I noticed that ...
- 163
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Simplest way to precondition Uzawa iteration
I have a diffusion problem with an internal circular dirichlet constraint and a side condition which shall enforce a certain global volume integral.
$\nabla(D \nabla u(x)) = 0$
outer boundary ...
- 1,936
2
votes
1
answer
72
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Right-preconditioning and fixed point linear iterations
Given a linear system $A\textbf{x}=\textbf{b}$, we can express it into the easier-to-solve right-preconditioned form:
$$ AM^{-1}\textbf{y}=\textbf{b}, \quad \textbf{y}= M\textbf{x} $$
On the other ...
3
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0
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Numerical analysis, pivoting and incomplete LU decomposition
When doing LU decomposition, the algorithm will break down if any of the diagonal element $x_{ii}$ is zero. Therefore, we can use pivoting on the matrix such that $x_{ii}$ is no longer zero. That is ...
- 31
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Multigrid preconditioner for conjugate gradient methods
When solving $A*x=b$ using preconditioned conjugate gradient methods one has to solve $z=K^{-1}*r$ for the preconditioning where $K$ is the preconditioner of $A$ and $r$ is the residual vector.
...
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votes
1
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141
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what is Sherman-Morrison formula
Can someone please explain what is the Sherman-Morrison formula and it's specialities when it comes to matrix calculations? I'm a little bit confused on understanding how the preconditioning works ...
3
votes
0
answers
85
views
Element Preconditioner
Im just working on a preconditioner for the linear equation system $Ax = b$ arising in FEM for elliptic PDE. $A$ is a s.p.d Matrix with real valued entries. I read something about the element by ...
user29088
8
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How to find a good preconditioner to the system $(A^T A + \lambda I) x = A^T b$?
The system in the title has a damper factor $\lambda > 0$ and the matrix $A$ is sparse and rectangular, with a structure I can exploit to solve matrix vector products very fast. My current solver, ...
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1
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219
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Efficient implementation of preconditioners for iterative solvers
I am struggling a bit with the concept of preconditioners for iterative solvers and how to implement them efficiently. The literature mostly provides methods to create a preconditioner matrix $M$ (...
- 784
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votes
0
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142
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Preconditioned residual converges, but true residual doesn't
I'm using Albany w/ Trilinos to solve an elasticity problem with thermal expansion mismatch. I'm using block GMRES with MueLu preconditioning. It works for problem size of several million dofs, but ...
- 41
6
votes
1
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151
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Eigenvalue problems with extremely small gaps
I'm interested in numerically diagonalizing a class of structured, symmetric eigenvalue problems with potentially extremely small eigenvalue gaps. The question I have is how to design a numerically ...
- 303
7
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1
answer
1k
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How to directly compute the inverse of an ill-conditioned dense matrix
I know that it is generally a bad idea to compute the inverse matrix directly. However, if it is necessary to compute the inverse of an ill-conditioned invertible dense matrix, then what can I try?
...
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2
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How to verify solution to pre-conditioned linear systems solver?
I am solving Ax=b. A has a very large condition number (> O(10^10))
I am using the conjugate gradients method with point jacobi pre-conditioning. I obtained a solution 'x' that "looks" reasonable. ...
- 251
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Why does PETSc take unexpectedly long to set up its KSP solver with a custom preconditioner? [closed]
I am attempting to solve a large system, $\bf{Ax} = \bf{b}$ with the help of PETSc. Due to the size of the problem, I'm using a matrix-free approach, where $\bf{A}$ is just a shell. I'm also providing ...
- 143
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2
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Correct use of scipy's sparse.linalg.spilu
I'm attempting to use scipy's spilu routine as a preconditioner and I'm finding bad performance for my application (solving a global linear system arising from a DG ...
- 642
2
votes
0
answers
62
views
Scaling for a nonsymmetric eigenvalue problem
I have an eigenvalue problem emerging from the internal vibro-acoustic coupling.
The eigenvalue problem is nonsymmetric but it was proven in literature that it results in real eigenvalues and ...
- 121
2
votes
2
answers
198
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Preconditioner for scalar laplacian system
Suppose that I have a large (on the order of 10^6 unknowns) 3D scalar Poisson system which I would like to precondition. The boundary conditions have been treated so that the system is SPD. I.e.,
$$\...
- 642
1
vote
2
answers
1k
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Is it necessary to invert precondition matrix for iterative solver?
I was reading these slides about preconditioners. I believe I grasp the idea of how they work but there is something that is still not making sense.
If we have the system $Ax=b$ and use a ...
- 1,019