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6
votes
0answers
453 views

How to do FEM in sector elements?

Suppose we have an element in the polar coordinate as $0\leq r\leq 1$, $0\leq\theta\leq \alpha$. What are the correct basis functions in this element? For this kind of mesh, there are a lot of ...
6
votes
3answers
612 views

role of initial guess for iterative linear solver

Suppose we use a preconditioned iterative solver for a linear system. If the initial state for the solver can be chosen very close to the exact solution - does this reduce requirements for the ...
6
votes
3answers
145 views

Accurate evaluation of the sign of a polynomial

Let $p$ be a polynomial with floating-point coefficients and let $a$ be a floating-point value. Is there a method for accurately evaluating the sign of $p(a)$ in floating-point arithmetic? I don't ...
5
votes
1answer
2k views

PDE - Conservative form, conservative methods and discrete conservation

I cannot find a reference explaining clearly and rigorously the links between the notions of conservative form for a PDE, a conservative numerical method and discrete conservation. I would be very ...
5
votes
1answer
1k views

method of frozen coefficients and its relation to von Neumann stability analysis

I am considering two equations $$u_t=a(x)u_{xx}$$ and $$v_t=b(x)v_x$$ as classical representatives of the parabolic and hyperbolic family of equations. If $a(x)=a$ and $b(x)=b$ were constants, to show ...
5
votes
2answers
471 views

How to parallelize a banded direct solver?

I have a linear system whose matrix that is diagonally dominant, non-symmetric, but banded. Since the band-radius is 2 (producing only 5 variables per equation), a banded direct solver (gaussian ...
4
votes
1answer
288 views

adjoint method for reaction-diffusion problem

I'm trying to code a parameter estimation for a reaction-diffusion problem. Namely, knowing the distribution of tumor density $u$ at time $0$ and $T_f$ ($u^0$ and $u^f$), what are the best ...
4
votes
1answer
2k views

Is there a mesh generator that will generate zero thickness elements for interfaces?

I have a geometry and a finite element method where there are a couple internal interfaces across which I want to enforce some fairly simple jump conditions. One recommendation I've gotten has been ...
4
votes
3answers
522 views

Quality Measures for Various Pseudo-Random Number Generators

According to this paper, Ideally, a pseudorandom number generator would produce a stream of numbers that: are uniformly distributed, are uncorrelated, never repeats itself, ...
3
votes
1answer
322 views

Finite Elements Weak Formulation generalization

I am struggling with an equation that represents the Weak form of Galerkin method: $ \phi^{T}F(\textbf{u})\sim \int_{\Omega}^{ } \phi.f_{0}(\mathit{u},\nabla \mathit{u}) + \nabla\phi:f_{1}(\mathit{u},...
3
votes
1answer
993 views

Implementation of gradient zero boundary conditon in advection-diffusion equation

My question is about Finite Element Method. I want to know how to implement "gradient zero" conditions to advection-diffusion equations in conservative form like, $\frac{\partial \rho}{\partial t} + ...
2
votes
0answers
160 views

Heisenberg Model python : Specific heat capacity for spin 2

I have the correct plot for specific heat capacity when I am using the formula which is $C_V$ = differentiation of entropy with respect to temperature. However, When I try to calculate $C_V$, by using ...
2
votes
1answer
124 views

Calculation of the EFIE integral

I need help computing the following integral: $$ \int_{}\frac{(1+jk|\vec{r}-\vec{r}^\prime|)e^{-jk|\vec{r}-\vec{r}^\prime|}}{|\vec{r}-\vec{r}^\prime|}d\vec{r}^\prime $$ in this integral $\vec{r}$ ...
2
votes
1answer
3k views

Introduction to Lattice Boltzmann methods [closed]

I am trying to learn the Lattice-Boltzmann method and was looking for some good beginner resources explaining the method. I have been looking at some codes online, but have been having trouble ...
2
votes
1answer
180 views

Physical interpretation of divergence theorem

In a diverging pipe section like the following, the pipe of radius $r$ splits into two pipes of radius $r/2$. Consider a solute transported by convection from node 1. $$\frac{\partial C}{\partial t}...
2
votes
1answer
210 views

Imposing boundary conditions for PDE quadratic eigenvalue problem

I have a quadratic eigenvalue problem of the form: $$(A_2 s^2 + A_1 s + A_0)\hat{v} = 0$$ where $s$ is the eigenvalue. The matrices $A_i$ contain derivatives up to order six, and I have six boundary ...
1
vote
1answer
398 views

FEM on tet10 element: negetive determinant at the Gauss point

I am trying to implement a fem code on tet10 elements. I follow the lecture notes for tet10 implementation given in http://www.colorado.edu/engineering/CAS/courses.d/AFEM.d/AFEM.Ch10.d/AFEM.Ch10.pdf ...
1
vote
1answer
272 views

Calculate inverse of dense matrix with entries of very different magnitude

I need to calculate the inverse of a dense matrix, with some elements taking values as high as 1e9 and some around 1e2. What would be the best method to do it? Note: I am more concerned about the ...
0
votes
2answers
142 views

Adaptive numerical integration of a univariate vector integrand

Background & Problem formulation I'm trying to write a simple program in C++ that performs adaptive numerical integration of vector valued integrands (in one variable), i.e. $$\int_a^b \bar{f}(...
0
votes
0answers
2k views

Finite differences and Neumann boundary conditions

I am dealing with a highly nonlinear system of two PDEs. I already have a code to solve the system in case of Dirichlet boundary conditions. The explicit system is: $$ \begin{eqnarray*} \partial_{t}u ...
11
votes
1answer
331 views

For software submitted to ACM TOMS, how does the ACM software license agreement interact with other licenses?

The journal Association for Computing Machinery Transactions on Mathematical Software (ACM TOMS) publishes many articles on numerical algorithms that include software implementations. According to ...
8
votes
2answers
221 views

How should I report profiling/timing information about my code?

I've seen a lot of publications in Computational Physics journals use different metrics for the performance of their code. Especially for GPGPU code, there seems to be a great variety of timing ...
8
votes
1answer
1k views

Shortley-Weller finite difference method

can you give me a link for a good and simple explanation of the Shortley-Weller finite-difference scheme? I tried to google it but all I get is (inaccessible) academic publications. I also tried ...
7
votes
3answers
521 views

C - OpenMP, MPI, Serial Program

I'm part of a Computational Science course and come from a non-programming background, so please forgive me my ignorance. I'm working on a set of code in C to numerically solve the Navier Stokes ...
7
votes
1answer
269 views

How to avoid overflow error in program that computes product of two numbers, such that when one is big enough to cause overflow, other is $0$?

Let us say that I have a function like so: def f(x): return g(x)*h(x) Now, g(x) and ...
6
votes
3answers
4k views

How to find QR decomposition of a rectangular matrix in overdetermined linear system solution?

While trying to find cell-centered gradients in finite volume method computation of incompressible fluid flow I get over-determined linear system. This is a well known "cell based least-square" ...
6
votes
3answers
275 views

Is there a minimum angle requirement for cells in the finite volume method?

In his talk "What is a good linear finite element?", Shewchuk states that small dihedral angles in linear tetrahedra elements cause ill-conditioning of the stiffness matrix. Do small dihedral angles ...
5
votes
2answers
489 views

What does symmetrize mean? (imposing multifreedom constraints to stiffness matrix)

I have a small FEM implementation program. And I want to add imposing multifreedom constraints (MFC) feature to it. The theory of master-slave method is given here (page 10 for general case). ...
5
votes
3answers
3k views

Discrete Poisson Equation with Pure Neumann Boundary Conditions

I'm trying to implement the Helmholtz-Hodge Decomposition in 2D, which states that a vector field is composed by a rotational free component, a divergence free component and a harmonic component. ...
5
votes
2answers
313 views

Approximating and visualizing basins of attraction

I am working on estimating the position and orientation (pose) of a model (rigid object) from its silhouette in an image. For this, I have constructed an error measure between the model in its pose ...
5
votes
2answers
595 views

Perturbation of Cholesky decomposition for matrix inversion

I am looking for a computationally cheap way to compute $x$ such that $$(L L^T + \mu^2 I)x = y$$ where $L \in \mathbb{R}^{n \times n}$ is a lower triangular definite positive matrix (with some very ...
4
votes
1answer
227 views

Fast algorithm for computing cofactor matrix

I wonder if there is a fast algorithm, say ($\mathcal O(n^3)$) for computing the cofactor matrix (or conjugate matrix) of an $N\times N$ square matrix. And yes, one could first compute its determinant ...
4
votes
1answer
562 views

LU Decomposition of PSD Matrix + Diagonal Matrix

If I have a psd, symmetric matrix $\mathbf{A}$ and I need to do LU decomps on $\mathbf{B_i}= \mathbf{A} + \mathbf{D_i}$ (where $\mathbf{D_i}$ is a diagonal psd matrix, where $\mathbf{D_i}$ changes ...
4
votes
1answer
335 views

Interpolating a mathematical function using a Hermite Cubic Finite Element Space

I have a Hermite Cubic Finite Element Space on a computer in the form of Matlab m-files. More specifically, I can evaluate four "shape functions" $N_1, N_2, N_3,$ and $N_4$, for which the following ...
4
votes
1answer
175 views

Compute hypergeometric function ratio: $\frac{_{2}F_{1}(a+1,b;c;x)}{_{2}F_{1}(a,b;c;x)}$?

I need a numerically stable way to compute the following ratio: $$\frac{_{2}F_{1}(a+1,b;c;x)}{_{2}F_{1}(a,b;c;x)}$$ All the parameters are real numbers, with $a< 0$,$\ $ $b,c > 0$ and $0<x&...
4
votes
1answer
143 views

Fast and free server for computing

I have to calculate a huge differential equation. With my laptop, it's going to be computed for several days. Is there a free (I need just for 3 days) fast server for scientific calculations? My ...
4
votes
1answer
2k views

Partial trace algorithm (original)

In general, is there a partial trace algorithm (ideally for systems of any size) that can be coded using basic matrix operations found in software like Mathematica or Maple? All of the methods I'm ...
4
votes
1answer
92 views

Linear programming boundedness

Assume the optimal value of a primal problem is bounded. Is the following statement true? If the primal problem is bounded, then its dual problem is bounded as well.
3
votes
0answers
211 views

logsumexp with one very large term and many very small terms

I want to compute an expression of the form: $$L = \ln\sum_i e^{x_i}$$ Suppose that there are many small terms, say $e^{x_i} \approx \epsilon$. If there are $N_\epsilon$ such terms, their ...
3
votes
1answer
255 views

non-smooth convex c++ solver

I happened to know that there are advanced established techniques for non-smooth convex optimization in research. For example, these two papers: Nesterov, "Smooth minimization of non-smooth functions"...
3
votes
1answer
5k views

Why a finite difference scheme would give second order of accuracy in norm L2 but 1.5 with L1 (while 1 with Linf)?

My finite difference scheme for the 2D Euler equations is second order accurate in theory, since all the terms are second order accurate, with the advective terms being third order. So I expect a rate ...
3
votes
2answers
526 views

DST using FFT routine

Please can you help me with my problem? On Wikipedia, in article Discrete sine transform, this is written (chapter Computation): "Although the direct application of these formulas would require O(N2) ...
3
votes
2answers
729 views

NP-Completeness

Consider an instance of non-convexoptimization problem: It seems that this problem is NP-complete. How can I find a suitable reduction for this?
3
votes
1answer
212 views

Finding zeroes of an infinitely differentiable function of ~100 to ~1000 variables

I have a function that is not only infinitely differentiable, but it is also very cheap to calculate any of those derivatives. It looks like: $f(\boldsymbol{C}, \boldsymbol{x})=\sum_{i} C_{i} \prod_{...
3
votes
1answer
179 views

How many operations are needed for LAPACK's zgesv to solve a linear system?

I have a linear system of complex numbers. I am using LAPACK' zgesv (actually I am using intel MKL LAPACKE, but I am assuming the algorithm is the same). No assumption can be made about the system. I ...
3
votes
2answers
386 views

Get equation for a curve which intersects x at seemingly randomly distributed points?

Is there any type of function that when graphed would show a curve which intersects the x axis multiple times, with each point being an arbitrary distance from the last? I mean, not like a trig ...
2
votes
1answer
96 views

MATLAB's ode45 not dealing with initial conditions well [RESOLVED]

*Concern highlighted in yellow *Solution at bottom I have a differential equation to solve for the motion of an electron: $$ \frac{d^2v}{dt^2} = \frac{1}{\gamma^6}\left( \frac{eE}{\tau m} - \left( \...
2
votes
1answer
592 views

Crank-Nicolson algorithm for coupled PDEs

Assumed I have the following two coupled equations $$\begin{split} \partial_tA&=a_0AB\\ \partial_tB&=b_0AB \end{split} $$ but I am not sure how to calculate them. One approach is a crank-...
2
votes
1answer
2k views

4th order Runge-Kutta Method for Driven Damped Pendulum

Although I've been looking everywhere, I have been unable to find an answer to my question so here it is. For a driven damped pendulum the equation of motion in dimensionless units is, $$\alpha(\...
2
votes
2answers
136 views

Weak form of the Navier-Cauchy equation

I am trying to obtain the weak form of the Navier-Cauchy equation, which is $$- \rho \omega ^2 \textbf{U} - \mu \nabla ^2 \textbf{U} - (\mu + \lambda) \nabla (\nabla \cdot \textbf{U}) = \textbf{F}$$ ...

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