# All Questions

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### Solution errors when refining a static grid: Continuous vs. step-wise refinement

Let's assume I am working on a 2-D domain on $R^2$, with my coordinates $x \in[-1,1]$, $y \in[-1,1]$ and I want to solve a popular CFD problem, like the shallow water system or the Euler system. At \$x=...
579 views

### Convergence problem for Poisson equation with periodic BC

I have written Poisson solvers using two different methods: A classic Jacobi scheme and one using the multigrid solver Hypre. I made up a couple of test cases ensuring the validity of those solvers. ...
77 views

### Number of GMRES iterations increase when stepping forward in time, using the Newton method

I am solving a system of nonlinear time-dependent equations using the Newton method in a finite-element-setting, i.e. first I create the jacobian matrix for the current time, and afterwards I try to ...
1k views

### Boost::mpi or C MPI for high performance scientific applications?

The thing I dislike most about MPI is dealing with datatypes (i.e. data maps/masks) because they don't fit that nicely with object oriented C++. boost::mpi only ...
66k views

### Parallelizing a for-loop in Python

Are there any tools in Python that are like Matlab's parfor? I found this thread, but it's four years old. I thought maybe someone here might have more recent experience. Here's an example of the ...
18 views

### Orientation of cones and transitive closures of a dmplex in Petsc

From the Petsc manual pages, I fail to understand what the orientations of cones and transitive closures mean. In particular, how can I relate these numbers to the orientation of the length/area/...
138 views

### 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 ...
2k views

### How to Run MPI-3.0 in shared memory mode like OpenMP

I am parallelizing code to numerically solve a 5 Dimensional population balance model. Currently I have a very good MPICH2 parallelized code in FORTRAN but as we increase parameter values the arrays ...
122 views

21 views

### On using Ritz Method to solve a Mindlin–Reissner plate

I am trying to replicate the method given in the this paper. I have written a Matlab program which determines the displacement field of Mindlin–Reissner plate theory using Ritz method. The limitation ...
303 views

### Nonlinear integer program with linear constraints

I'm trying to perform inference over a subset of the latent variables of a hierarchical hidden Markov model I built. I've derived the relevant optimization problem, but it's a pretty nasty piece of ...
111 views

### How to compute 16 different simulations on parallel with pbs script on the same machine

I have a 32 cores machine, and I need to run 16 different dynamics simulations in parallel on it. I want the 16 jobs to run in parallel, not sequentially, on the same machine. The 16 dynamics input ...
37 views

### Inverses of many standard subspaces of one large matrix

i have a large rectangular invertible matrix M (about 5000x5000) and i have a loop in which i do the following for each iteration i (there are about 6000 iterations): i am given a subspace S_i (which ...