The model requires several meshes (format can be .ply or .off):
*`mandible`:
* closed surface mesh of the mandible.
The model requires several mesh files (the file format can be .ply or .off):
***mandible**:
*Thi is the closed surface mesh of the mandible.
* the boundary conditions will be applied in the global cartesian reference frame. Thus, this mesh should be aligned with its principal axes (see MeshLab: Filters / Normals, Curvatures and Orientation / Transform: Align To Principal Axis)
* A gmsh file (.msh) of the volume mesh can also be given
* If this mesh is given as a surface mesh file, it will be meshed with gmsh. Try to mesh it manually in gmsh first because it sometimes fail.
*`teeth`:
***teeth**:
* A set of vertices selected on the top of the teeth where contact with the food occurs.
* Using MeshLab:
* Select the vertices using vertex selector ("Select Vertices" button) and the mouse.
* When the selection is finished, invert the selection (pressing "SHIFT-i").
*delete all the selected vertices using "Filters / Selection / "Delete selected vertices".
*check that your model only contains the desired number of vertices.
*save these vertices to a file (e.g. teeth.ply)
*`LTMJ`/`RTMJ`:
*use the same procedure as for the teeth to save 1 vertex representing the left temporomandibular joint (LTMJ) and the right one (RTMJ) to 2 separate files (e.g. LTMJ.ply and RTMJ.ply)
*a series of muscle surfaces (you can name them as you like)
*Delete all the selected vertices using "Filters / Selection / "Delete selected vertices".
*Check that your model only contains the desired number of vertices.
*Save these vertices to a file (e.g. teeth.ply)
***LTMJ/RTMJ**:
*Use the same procedure as for the teeth to save 1 vertex representing the left temporomandibular joint (LTMJ) and the right one (RTMJ) to 2 separate files (e.g. LTMJ.ply and RTMJ.ply)
*A series of **muscle attachement areas** (you can name them as you like)
* for each muscle, using MeshLab:
*
* Select the faces on which the muscle is attached to the bone
* When the selection is finished, invert the selection (pressing "SHIFT-i").
* Delete all the selected faces and vertices using "Filters / Selection / "Delete selected faces and vertices".
* Save this group of faces to a file (e.g. muscle.ply).
* Each muscle requires a **focal node** towards which the muscle force is directed.
* If this focal point can be "picked" in MeshLab on another mesh, you can use the same procedure as for LTMJ/RTMJ.
* If not you can write the coordinate of the point in a .off file (several examples ara available in this folder).
The mesh files are specified in the input file:
```
path = 'dolicorhynchops/10k'
p['mandible'] = f'{path}/mandible.ply'
p['teeth'] = f'{path}/teeth.off'
p['LTMJ'] = f'{path}/LTMJ.off'
p['RTMJ'] = f'{path}/RTMJ.off'
p['muscles'] = [
{
'file': f'{path}/Lmuscle.ply',
'force': 100.,
'focalpt': f'{path}/LmuscleF.off',
'method': 'T'
},
{
'file': f'{path}/Rmuscle.off',
'force': 100.,
'focalpt': f'{path}/RmuscleF.off',
'method': 'T'
}
]
```
For each muscle, the "method" can be 'U', 'T' or 'T+N' referring to (see [Grosse et al. 2007](https://doi.org/10.1002/ar.20568))
