BioFOAM

The BioFOAM solver was developed based on the micro-continuum theory and the Darcy-Brinkman-Stokes (DBS) equation to simulate pore-scale biofilm growth in heterogeneous porous media. This code is developed based on the pioneer work conducted by Cyprien Soulaine from the package named porousMedia4Foam (https://github.com/csoulain/porousMedia4Foam).

1. Check the environment

The BioFOAM solver is built up in OpenFOAM Version 7. The required environment is GNU Linux. Before installing the code, please source the OpenFOAM environment:

source ~/etc/bashrc

2. Install the solver

1. enter the correct path cd BioFOAM/solver/
2. run wmake
3. if you want to clear the solver, run wclean

Please note that the solver requires debugging process when it is first installed in a new environment.

3. Run a case

1. enter the correct path cd BioFOAM/cases/SinglePore/
2. run blockMesh
3. run setField
4. run BioFOAM