Miniapps¶
oscillator¶
The oscillator mini-application computes a sum of damped, decaying, or periodic oscillators, convolved with (unnormalized) Gaussians, on a grid. It could be configured as a proxy for simulation of a chemical reaction on a two-dimensional substrate (see Chemical reaction on a 2D substrate).
| option | description |
| -b, –blocks INT | Number of blocks to use [default: 1]. |
| -s, –shape POINT | Number of cells in the domain [default: 64 64 64]. |
| -e, –bounds FLOAT | Bounds of the Domain [default: {0,-1,0,-1,0,-1]}. |
| -t, –dt FLOAT | The time step [default: 0.01]. |
| -f, –config STRING | SENSEI analysis configuration xml (required). |
| -g, –ghost-cells INT | Number of ghost cells [default: 1]. |
| –t-end FLOAT | Request synchronize after each time step. |
| -j, –jobs INT | Number of threads [default: 1]. |
| -o, –output STRING | Prefix for output [default: “”]. |
| -p, –particles INT | Number of particles [default: 0]. |
| -v, –v-scale FLOAT | Gradient to Velocity scale factor [default: 50]. |
| -r, –seed INT | Random seed [default: 1]. |
| –sync | The end time [default: 10]. |
| -h, –help | Show help. |
The oscillators’ locations and parameters are specified in an input file (see input folder for examples).
# type center r omega0 zeta
damped 32 32 32 10. 3.14 .3
damped 16 32 16 10. 9.5 .1
damped 48 32 48 5. 3.14 .1
decaying 16 32 48 15 3.14
periodic 48 32 16 15 3.14
Note that the generate_input script can generate a set of randomly initialized oscillators.
The simulation code is in main.cpp while the computational kernel is in Oscillator.cpp.
To run:
mpiexec -n 4 oscillator -b 4 -t 0.25 -s 64,64,64 -g 1 -p 0 -f sample.xml sample.osc
There are a number of examples available in the SENSEI repositoory that leverage the oscillator mini-application.