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A finite element solution of an ion channel dielectric continuum model suchas Poisson-Boltzmann equation (PBE) and a system of Poisson-Nernst-Planckequations (PNP) requires tetrahedral meshes for an ion channel protein region,a membrane region, and an ionic solvent region as well as an interface fittedirregular tetrahedral mesh of a simulation box domain. However, generatingthese meshes is very difficult and highly technical due to the related threeregions having very complex geometrical shapes. Currently, an ion channel meshgeneration software package developed in Lu's research group is one availablein the public domain. To significantly improve its mesh quality and computerperformance, in this paper, new numerical schemes for generating membrane andsolvent meshes are presented and implemented in Python, resulting in a new ionchannel mesh generation software package. Numerical results are then reportedto demonstrate the efficiency of the new numerical schemes and the quality ofmeshes generated by the new package for ion channel proteins with ion channelpores having different geometric complexities.

Efficient Generation of Membrane and Solvent Tetrahedral Meshes for Ion Channel Finite Element Calculation