Export idealized geometry to meshlab

[jtgreen]

I'm not very familiar with dolfin, is there a way to export the fiber mesh to a file format that is readable by meshlab? Ideally I'd like to export it as an obj file, as I'd like to couple it with: https://github.com/fsahli/fractal-tree

Probably a silly question, and probably unrelated, but I'm new to this kind of modeling: the fiber output is what you would superimpose a purkinje network on for running cardiac EP, correct? E.g., once you've created the mesh of fibers, this is what one would use to then calculate a tissue simulation, or am I missing something? That is, the fibers, their angles, and type of tissue (endo, mid, epi), encode much of the anisotropy in the tissue; the base mesh, from which the fibers are made, is then discarded?

[jtgreen]

If you point me in the right direction for exporting to a particular format, I can write the code.

[finsberg]

I am not familiar with meshlab, but the mesh is generated with gmsh, see https://github.com/ComputationalPhysiology/cardiac_geometries/tree/main/src/cardiac_geometries/_gmsh

When you create a mesh with cardiac-geometries using the command line interface, then the gmsh-file (in .msh format) is stored in the output directory so that could probably be used.

Not sure if I completely understand the question, but maybe this demo will clarify: https://github.com/ComputationalPhysiology/cbcbeat/tree/master/demo/bidomain-biventricular ?

[jtgreen]

"""Not sure if I completely understand the question, but maybe this demo will clarify: https://github.com/ComputationalPhysiology/cbcbeat/tree/master/demo/bidomain-biventricular ?"""

This is helpful. So a purkinje system would simply be a separate mesh that has nodes that activate the fiber cells?

I'd like to see an example at the cbcbeat page that runs the EP simulations with a purkinje system. If I fork and work on modifying https://github.com/fsahli/fractal-tree to work with your idealized BiV mesh example, would it be difficult for you all to make one of your demos work with a purkinje system?