Stokes: create triangulated surface meshes and solve hydrodynamic Stokes equation

This is a collection of Python packages previously used to solve biological hydrodynamics problems, see references [3,4] below

• FBEM: routines to solve Stokes equation using a third-party hydrodynamic solver
  (Liu's fast multipole boundary element method FMM-BEM, see references [1,2])
• mesh: routines to be create triangulated meshes to be used as input files for FBEM
  • mesh.plot: routines for 3D mesh visualizations
• simulation_helpers: helpful routines to run large-scale simulations with multi-threading.

Installation:

• Please use setup.py; run as python setup.py develop to install code in development mode.
• Copy FBEM executables to FBEM/exe folder (see FBEM README).
• Additional packages can be installed for 3D mesh visualizaiton (see mesh README).

Usage

• Please see examples in /example/
• The folders of the individual subprojects contain additional README files.

Authors

• Anton Solovev
• Gary Klindt
• Benjamin M. Friedrich, email: benjamin.m.friedrich@tu-dresden.de

If you want to use this code in a scientific publication, please cite [3].

• [1] Dr. Yijun Liu webpage. Package C2 (fast multipole boundary element method to solve the Stokes equation)
• [2] Liu & Nishimura 2006
• [3]: Solovev & Friedrich 2021 EPJ E ST; also available as arXiv preprint
• [4]: Solovev & Friedrich 2020 arXiv:2012:11741