From 6cfd931bc450aa20326c16fdc0d528077b125e79 Mon Sep 17 00:00:00 2001
From: Romain Boman <romain.boman@gmail.com>
Date: Mon, 6 May 2024 15:00:29 +0200
Subject: [PATCH] add new way of adding fixations
---
models/bonemodel2.py | 71 +++++++++----------
models/dolicorhynchops/dolicorhynchops_10k.py | 27 ++++---
2 files changed, 52 insertions(+), 46 deletions(-)
diff --git a/models/bonemodel2.py b/models/bonemodel2.py
index bd7cd8f..3f2634b 100644
--- a/models/bonemodel2.py
+++ b/models/bonemodel2.py
@@ -18,16 +18,11 @@ def parms(d={}):
"""
p = {}
- # Geomagic/MeshLab input files
+ # Geomagic/MeshLab input folder
path = 'dolicorhynchops/10k'
+
# mandible mesh (.ply/.geo/.msh)
p['bone'] = f'{path}/mandible.ply'
- # one or several vertices (.ply/.off) (used if p['food']=='fixteeth')
- p['contact_pts'] = f'{path}/teeth.off'
- # left temporomandibular joint - 1 vertex (.ply/.off/coordinates)
- p['axis_pt1'] = [0.1458893, -73.13895, 227.3909]
- # right temporomandibular joint - 1 vertex (.ply/.off/coordinates)
- p['axis_pt2'] = f'{path}/RTMJ.off'
p['muscles'] = [
{
@@ -43,12 +38,30 @@ def parms(d={}):
'method': 'T'
}
]
- p['food'] = 'fixteeth' # type of food: 'fixteeth' or 'cylinder'
- p['fixations'] = {
- 'contact_pts': ['x', 'y', 'z'], # constrained degrees of freedom
- 'axis_pt1': ['x', 'y', 'z'],
- 'axis_pt2': ['x', 'y', 'z']
- }
+
+ # list of fixed nodes
+ # with "name" a description string used for output purposes,
+ # "nodes" a list of nodes (coordinates) or a mesh file,
+ # "direction" a list of constrained degrees of freedom
+
+ p['fixations'] = [
+ {
+ 'name': 'contact_pts',
+ 'nodes': [[-10.20362, -17.46838, -229.9061],
+ [-11.92466, 26.3042, -229.5354]],
+ 'direction': 'x'
+ },
+ {
+ 'name': 'axis_pt1',
+ 'nodes': f'{path}/LTMJ.off',
+ 'direction': ['x', 'y', 'z']
+ },
+ {
+ 'name': 'axis_pt2',
+ 'nodes': [-8.716309, 79.13171, 233.8385],
+ 'direction': ['x', 'z']
+ }
+ ]
# material properties
p['Young'] = 17000. # [MPa] elastic modulus - bone: 17-20 GPa
@@ -91,10 +104,6 @@ def solve(p={}):
nods_pos = np.reshape(nods_pos, (len(nods_no), 3))
# print(f'nods_pos={nods_pos}')
- # load other surface meshes => groups['axis_pt1'], ...
- for meshname in ['axis_pt1', 'axis_pt2']:
- create_group(p[meshname], nods_no, nods_pos, groups, meshname)
-
# load muscle groups
mgroups = {} # stores muscle group data and loads
for muscle in p['muscles']:
@@ -121,10 +130,9 @@ def solve(p={}):
for i,load in enumerate(loads):
f.write(f"{int(ntags[i])}\t{load.x[0]}\t{load.x[1]}\t{load.x[2]}\n")
- if p['food'] == 'fixteeth':
- # teeth are fixed along chosen directions
- create_group(p['contact_pts'], nods_no,
- nods_pos, groups, 'contact_pts')
+ # create groups of fixed nodes
+ for fix in p['fixations']:
+ create_group(fix['nodes'], nods_no, nods_pos, groups, fix['name'])
# --------------------------------------------------------------------------
@@ -136,14 +144,14 @@ def solve(p={}):
# material
do_not_delete.append( fem.Medium(pbl, "all", E=p['Young'], nu=p['Poisson']) )
+ # add Dirichlet conditions (fixations)
# print('== ADDING DIRICHLETs...')
- # axis of rotation
- for gname in ['axis_pt1', 'axis_pt2']:
- for d in p['fixations'][gname]:
- do_not_delete.append(fem.Dirichlet(pbl, gname, dof=d.upper(), val=0.0) )
+ for fix in p['fixations']:
+ for d in fix['direction']:
+ do_not_delete.append(fem.Dirichlet(pbl, fix['name'], dof=d.upper(), val=0.0) )
+ # add Neumann conditions (loads) from muscle loads
# print('== ADDING NEUMANNs...')
- # mshpts = geometry.getMesh().getPointSet()
for name, gr in mgroups.items():
# print(f'len(gr.ntags)={len(gr.ntags)}')
for i,load in enumerate(gr.loads):
@@ -151,20 +159,9 @@ def solve(p={}):
do_not_delete.append(fem.Neumann(pbl, int(gr.ntags[i]), 'Y', load.x[1]) ) # TODO: regler "dof=" qui marche pas
do_not_delete.append(fem.Neumann(pbl, int(gr.ntags[i]), 'Z', load.x[2]) )
- # type of food
-
- if p['food'] == 'fixteeth':
- # teeth are fixed along chosen directions
- for d in p['fixations']['contact_pts']:
- do_not_delete.append(fem.Dirichlet(pbl, 'contact_pts', dof=d.upper(), val=0.0) )
- else:
- raise Exception('food = "fixteeth" only supported')
-
-
# python only!
# do_not_delete.append(fem.Dirichlet(pbl, "all", dof='T', val=0.0) )
-
# Time integration scheme
# print (pbl)
# print('SOLVE.......')
diff --git a/models/dolicorhynchops/dolicorhynchops_10k.py b/models/dolicorhynchops/dolicorhynchops_10k.py
index 5a3ef24..99e195c 100644
--- a/models/dolicorhynchops/dolicorhynchops_10k.py
+++ b/models/dolicorhynchops/dolicorhynchops_10k.py
@@ -9,10 +9,6 @@ def parms(d={}):
import os
path = os.path.join(os.path.dirname(__file__),'10k')
p['bone'] = f'{path}/mandible.stl'
- p['contact_pts'] = [[-10.20362, -17.46838, -229.9061],
- [-11.92466, 26.3042, -229.5354]]
- p['axis_pt1'] = f'{path}/LTMJ.off'
- p['axis_pt2'] = [-8.716309, 79.13171, 233.8385]
p['muscles'] = [
{
'file': f'{path}/Lmuscle.stl',
@@ -28,11 +24,24 @@ def parms(d={}):
'method': 'T'
}
]
- p['fixations'] = {
- 'contact_pts': ['x'],
- 'axis_pt1': ['x', 'y', 'z'],
- 'axis_pt2': ['x', 'z']
- }
+ p['fixations'] = [
+ {
+ 'name': 'contact_pts',
+ 'nodes': [[-10.20362, -17.46838, -229.9061],
+ [-11.92466, 26.3042, -229.5354]],
+ 'direction': 'x'
+ },
+ {
+ 'name': 'axis_pt1',
+ 'nodes': f'{path}/LTMJ.off',
+ 'direction': ['x', 'y', 'z']
+ },
+ {
+ 'name': 'axis_pt2',
+ 'nodes': [-8.716309, 79.13171, 233.8385],
+ 'direction': ['x', 'z']
+ }
+ ]
# material properties
p['density'] = 1.850e-9 # [T/mm³]
--
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