0
votes
1answer
10 views

Cells segregation

There is unstructured grid which contains only quadrangles cells. Each cell has 4 neighbors, and known them (has a pointer to them). I can iterate through all cells in the grid. Some cells are marked ...
2
votes
2answers
38 views

How are the line and page sizes justified from the graph?

I Googled upon this paper that uses a cool way to interpret the latencies, line sizes, and page sizes of a cache from a graph like this. Apparently, the line size is where the the cache begins to ...
2
votes
1answer
41 views

Compute heat flux from Galerkin solution

I have a Galerkin solution for a heat equation $$ u_t = \Delta u + f $$ with Dirichlet conditions $$ u=0, \qquad x \in \partial\Omega $$ The time discretization is done using a BDF scheme. How can ...
1
vote
0answers
12 views

How to manipulate dihedral angles in pre-optimized molecule coordinates?

I want to explore the low energy states of an amino acid or a peptide by generating input geometries, defined by multiple dihedral angles of the backbone or the side chain. From these starting ...
2
votes
2answers
58 views

how can a 2-d fft be constructed to an equivalent matrix?

When I use the cvx matlab toolbox, I met a puzzled problem. The function of fft (or dct, wavelet, etc.) cannot be recognized by the type of 'cvx'. For the 1-d fft, it can be constructed to an ...
1
vote
1answer
42 views

How can I quantify the error of FFT-based poisson solvers?

I have an FFT code that solves a particular case of the steady Euler equations where a Poisson equation is solved, what is a good way to quantify the error? Is what I am doing ok? Since I do not have ...
1
vote
0answers
41 views

CUDA Mandelbrot Set effective bandwidth and optimization

I was reading through this article (very good article and excellent blog BTW) to do some measurements in my (very simple) implementation of the Mandelbrot Set. I'm using a Quadro 2000D card which has ...
1
vote
2answers
74 views

manufactured solutions for incompressible Navier-Stokes — how to find divergence-free velocity fields?

In the method of manufactured solutions (MMS) one postulates an exact solution, substitutes it in the equations and calculates the corresponding source term. The solution is then used for code ...
0
votes
0answers
30 views

How to distinguish between the different frequency domains? [migrated]

Sometimes the terms 'Fourier domain', 'complex frequency domain', 'Frequency domain' and 's domain' are used interchangeably. Take those answers here for example: ...
1
vote
0answers
48 views

Block Cyclic Reduction implementation help, matlab

I'm sorry if this question is too open ended, or not appropriate for the forum. If so I'll remove the post and see if I can refine my problem, but at the moment I'm totally stumped. I was hoping ...
1
vote
0answers
38 views

Is there MPI_Star instead of MPI_Win (window) for MPI_Get?

In FEM applications, each processor needs only data from neighboring processors, which gives a stencil or star pattern of communication. In MPI_Win for MPI_Get, one needs to setup a group of ...
5
votes
2answers
132 views

Flow past a cylinder - Projection Method - Boundary Conditions

I plan to write a code that solves the flow past a cylinder and try to see the Von-Karman vortex street. I will solve the 2-D viscous, incompressible Navier-Stokes using the projection method. The ...
2
votes
1answer
46 views

What is the most accurate molecular dynamic simulation method

First of all, I want to say that I am extremely new to MD simulations, so I apologize for any of these questions if they appear to be something that should be well known. I know that the classical ...
0
votes
0answers
12 views

How good is the sailor? [migrated]

Which statistical test should I use to answer the following 3 questions, using the data collected as follows: 12 sailors participated in a day long regatta, in which there were 3 races. In every ...
2
votes
1answer
22 views

Get job script directory with SGE

With the Sun Grid Engine, how can I get the directory where the job script is located, within the job script? I need this so I can start the script with ...

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