The MonoAlg3D is a program for solving the 3D monodomain equation by applying the Finite Volume Method.
- Linux-based operating system
- Nvidia Driver
- CUDA library
Ubuntu: Refer to the ubuntu guide
Fedora: Refer to the fedora guide
$ ./build.shThe binary files will be saved in the bin folder.
$ bin/MonoAlg3D -c example_configs/cuboid_ohara.ini The output will be saved in the VTK format. In order to see the results you can use Paraview (https://www.paraview.org/) or the compiled visualization tool in bin/MonoAlg3D_visualizer. You can also set the output to plain text, by changing the section save_result in example_configs/cuboid_ohara.ini to:
[save_result]
print_rate=250
output_dir=./outputs/tmp_cube
main_function=save_as_text_or_binary
binary=false
In the plain text format we have:
- Each line represents a Volume
- Each volume is represented by its center point (X, Y, and Z), the value of half of its side length on x, y and z and the calculated V
Example file:
850,850,950,50,50,50, -85
850,950,950,50,50,50, -85
850,950,850,50,50,50, -85
This file represents 3 volumes with 100 micrometer of side. The first volume is centered at at 850,850,950 and the calculated V is -85 mV.
@rsachetto Rafael Sachetto Oliveira
@bergolho Lucas Arantes Berg
@Rodrigo-Weber-dos-Santos Rodrigo Weber dos Santos
Among others.
Oliveira RS, Rocha BM, Burgarelli D, Meira Jr W, Constantinides C, dos Santos RW. Performance evaluation of GPU parallelization, space‐time adaptive algorithms, and their combination for simulating cardiac electrophysiology. Int J Numer Meth Biomed Engng. 2018;34:e2913. https://doi.org/10.1002/cnm.2913