add LTMJ as coordinates

models/dolicorhynchops_10k_contact.py

@@ -9,7 +9,7 @@ def parms(d={}):
     path = 'dolicorhynchops/10k'
     p['mandible'] = f'{path}/mandible.ply'
     # p['teeth'] = f'{path}/teeth.off'
-    p['LTMJ'] = [0.1458893, -73.13895, 227.3909],
+    p['LTMJ'] = [0.1458893, -73.13895, 227.3909]
     p['RTMJ'] = f'{path}/RTMJ.off'
     p['muscles'] = [
         {

models/mandiblemodel.py

@@ -19,8 +19,8 @@ def parms(d={}):
     path = 'dolicorhynchops/10k'
     p['mandible'] = f'{path}/mandible.ply' # mandible mesh (.ply/.geo/.msh)
     p['teeth'] = f'{path}/teeth.off'    # one or several vertices (.ply/.off) (used if p['food']=='fixteeth')
-    p['LTMJ'] = f'{path}/LTMJ.off'      # left temporomandibular joint - 1 vertex (.ply/.off)
-    p['RTMJ'] = f'{path}/RTMJ.off'      # right temporomandibular joint - 1 vertex (.ply/.off) 
+    p['LTMJ'] = [0.1458893, -73.13895, 227.3909] # left temporomandibular joint - 1 vertex (.ply/.off/coordinates)
+    p['RTMJ'] = f'{path}/RTMJ.off'      # right temporomandibular joint - 1 vertex (.ply/.off/coordinates) 
     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'}
@@ -275,14 +275,20 @@ def extract_nodes_from_group(group):
     return nods_no, nods_pos
 
 
-def create_group(mesh_file, all_no, all_coords, domain, groups, gname=None):
-    """loads the mesh file "mesh_file" and identify vertices among vertices
+def create_group(mesh_file_or_coord, all_no, all_coords, domain, groups, gname=None):
+    """loads the mesh file "mesh_file_or_coord" and identify vertices among vertices
     stored in all_coords. 
-    Then, the routine creates a group named "gname" (built from mesh_file if None)
+    Then, the routine creates a group named "gname" (built from mesh_file_or_coord if None)
     """
-    # load mesh file 
-    fullpath = os.path.join(os.path.dirname(__file__), mesh_file) 
-    nodes, tris = boneload.load_msh(fullpath)
+    # load mesh file
+    if isinstance(mesh_file_or_coord, str): 
+        fullpath = os.path.join(os.path.dirname(__file__), mesh_file_or_coord) 
+        nodes, tris = boneload.load_msh(fullpath)
+    else: 
+        nodes = [ mesh_file_or_coord ]
+        print(f'nodes={nodes}')
+        print(f'mesh_file_or_coord={mesh_file_or_coord}')
+        tris = []
 
     # identify nodes of the mesh among the given vertices of the main mesh
     ntags = boneload.identify_nodes(nodes, all_no, all_coords)
@@ -290,7 +296,7 @@ def create_group(mesh_file, all_no, all_coords, domain, groups, gname=None):
     # create a metafor group
     groupset = domain.getGeometry().getGroupSet()
     if gname is None:
-        gname, _ = os.path.splitext(os.path.basename(mesh_file))
+        gname, _ = os.path.splitext(os.path.basename(mesh_file_or_coord))
     group = groupset.add(Group(groupset.getLargestNo()+1))
     groups[gname] = group
 
@@ -300,7 +306,7 @@ def create_group(mesh_file, all_no, all_coords, domain, groups, gname=None):
         group.addMeshPoint(nodeset(tag))
 
     print(f'group #{group.getNo()} ({gname}) ' \
-    f'created from {mesh_file} ({group.getNumberOfMeshPoints()} nodes)')
+    f'created from {mesh_file_or_coord} ({group.getNumberOfMeshPoints()} nodes)')
     
     return gname, nodes, tris, ntags