def mesh_from_xy_points(faces_xy, extrude_mm=0.0):
index = {}
inverse = {}
count = 0
for face in faces_xy:
for point in face:
if tuple(point) not in index:
index[tuple(point)] = count
inverse[count] = point
count += 1
vertices = []
for i in index.values():
vertices.append(inverse[i])
faces = []
for face in faces_xy:
new_face = []
for point in face:
new_face.append(index[tuple(point)])
faces.append(new_face)
if len(faces_xy[0][0]) == 2:
return make_3d(pymesh.form_mesh(np.array(vertices), np.array(faces)),
extrude_mm)
else:
return pymesh.form_mesh(np.array(vertices), np.array(faces))
def map_boundary_to_sphere(mesh, basename):
bd_mesh = pymesh.form_mesh(mesh.vertices, mesh.faces);
bd_mesh, info = pymesh.remove_isolated_vertices(bd_mesh);
bd_vertices = np.copy(bd_mesh.vertices);
assembler = pymesh.Assembler(bd_mesh);
L = assembler.assemble("graph_laplacian");
# First, Laplacian smoothing to improve triangle quality.
for i in range(100):
c = np.mean(bd_vertices, axis=0);
bd_vertices = bd_vertices - c;
r = np.amax(norm(bd_vertices, axis=1));
bd_vertices /= r;
bd_vertices += L * bd_vertices;
if i%10 == 0:
sphere_mesh = pymesh.form_mesh(bd_vertices, bd_mesh.faces);
pymesh.save_mesh("{}_flow_{:03}.msh".format(basename, i), sphere_mesh);
# Then, run mean curvature flow.
sphere_mesh = pymesh.form_mesh(bd_vertices, bd_mesh.faces);
sphere_mesh = mean_curvature_flow(sphere_mesh, 100, use_graph_laplacian=True);
pymesh.save_mesh("{}_flow_final.msh".format(basename), sphere_mesh);
bd_vertices = sphere_mesh.vertices;
# Lastly, project vertices onto unit sphere.
bd_vertex_indices = info["ori_vertex_index"];
bd_vertex_positions = np.divide(bd_vertices, norm(bd_vertices,
axis=1).reshape((-1,1)));
return bd_vertex_indices, bd_vertex_positions;
def map_boundary_to_sphere(mesh, basename):
bd_mesh = pymesh.form_mesh(mesh.vertices, mesh.faces)
bd_mesh, info = pymesh.remove_isolated_vertices(bd_mesh)
bd_vertices = np.copy(bd_mesh.vertices)
assembler = pymesh.Assembler(bd_mesh)
L = assembler.assemble("graph_laplacian")
# First, Laplacian smoothing to improve triangle quality.
for i in range(100):
c = np.mean(bd_vertices, axis=0)
bd_vertices = bd_vertices - c
r = np.amax(norm(bd_vertices, axis=1))
bd_vertices /= r
bd_vertices += L * bd_vertices
if i % 10 == 0:
sphere_mesh = pymesh.form_mesh(bd_vertices, bd_mesh.faces)
pymesh.save_mesh("{}_flow_{:03}.msh".format(basename, i),
sphere_mesh)
# Then, run mean curvature flow.
sphere_mesh = pymesh.form_mesh(bd_vertices, bd_mesh.faces)
sphere_mesh = mean_curvature_flow(sphere_mesh,
100,
use_graph_laplacian=True)
pymesh.save_mesh("{}_flow_final.msh".format(basename), sphere_mesh)
bd_vertices = sphere_mesh.vertices
# Lastly, project vertices onto unit sphere.
bd_vertex_indices = info["ori_vertex_index"]
bd_vertex_positions = np.divide(bd_vertices,
norm(bd_vertices, axis=1).reshape((-1, 1)))
return bd_vertex_indices, bd_vertex_positions
def main():
args = parse_args()
mesh = pymesh.load_mesh(args.in_mesh)
if (args.with_rounding):
mesh = pymesh.form_mesh(np.round(mesh.vertices, args.precision),
mesh.faces)
intersecting_faces = pymesh.detect_self_intersection(mesh)
counter = 0
while len(intersecting_faces) > 0 and counter < args.max_iterations:
if (args.with_rounding):
involved_vertices = np.unique(
mesh.faces[intersecting_faces].ravel())
mesh.vertices_ref[involved_vertices, :] =\
np.round(mesh.vertices[involved_vertices, :],
args.precision//2)
mesh = pymesh.resolve_self_intersection(mesh, "igl")
mesh, __ = pymesh.remove_duplicated_faces(mesh, fins_only=True)
if (args.with_rounding):
mesh = pymesh.form_mesh(np.round(mesh.vertices, args.precision),
mesh.faces)
intersecting_faces = pymesh.detect_self_intersection(mesh)
counter += 1
if len(intersecting_faces) > 0:
logging.warn("Resolving failed: max iteration reached!")
pymesh.save_mesh(args.out_mesh, mesh)
def generate_potential_templates(pose, beta, outmesh_path):
# template 0
m.pose[:] = 0
m.betas[:] = beta
m.pose[5] = 0.5
m.pose[8] = -0.5
m.pose[53] = -0.5
m.pose[50] = 0.5
point_set = m.r.astype(np.float32)
mesh = pymesh.form_mesh(vertices=point_set, faces=m.f)
mesh.add_attribute("red")
mesh.add_attribute("green")
mesh.add_attribute("blue")
mesh.set_attribute("red", mesh_ref.get_attribute("vertex_red"))
mesh.set_attribute("green", mesh_ref.get_attribute("vertex_green"))
mesh.set_attribute("blue", mesh_ref.get_attribute("vertex_blue"))
pymesh.meshio.save_mesh('search/template0.ply', mesh, "red", "green", "blue", ascii=True)
# template 1
m.pose[:] = 0
point_set = m.r.astype(np.float32)
mesh = pymesh.form_mesh(vertices=point_set, faces=m.f)
mesh.add_attribute("red")
mesh.add_attribute("green")
mesh.add_attribute("blue")
mesh.set_attribute("red", mesh_ref.get_attribute("vertex_red"))
mesh.set_attribute("green", mesh_ref.get_attribute("vertex_green"))
mesh.set_attribute("blue", mesh_ref.get_attribute("vertex_blue"))
pymesh.meshio.save_mesh('search/template1.ply', mesh, "red", "green", "blue", ascii=True)
return
def iou_pymesh(mesh1, mesh2, dim=110):
# mesh1 = (vertices1, triangles1)
# mesh2 = (vertices2, triangles2)
mesh1 = pymesh.form_mesh(mesh1[0], mesh1[1])
grid1 = pymesh.VoxelGrid(2. / dim)
grid1.insert_mesh(mesh1)
grid1.create_grid()
ind1 = ((grid1.mesh.vertices + 1.1) / 2.4 * dim).astype(np.int)
v1 = np.zeros([dim, dim, dim])
v1[ind1[:, 0], ind1[:, 1], ind1[:, 2]] = 1
mesh2 = pymesh.form_mesh(mesh2[0], mesh2[1])
grid2 = pymesh.VoxelGrid(2. / dim)
grid2.insert_mesh(mesh2)
grid2.create_grid()
ind2 = ((grid2.mesh.vertices + 1.1) / 2.4 * dim).astype(np.int)
v2 = np.zeros([dim, dim, dim])
v2[ind2[:, 0], ind2[:, 1], ind2[:, 2]] = 1
intersection = np.sum(np.logical_and(v1, v2))
union = np.sum(np.logical_or(v1, v2))
return float(intersection) / union
def main():
args = parse_args();
mesh = pymesh.load_mesh(args.in_mesh);
if (args.with_rounding):
mesh = pymesh.form_mesh(
np.round(mesh.vertices, args.precision),
mesh.faces);
intersecting_faces = pymesh.detect_self_intersection(mesh);
counter = 0;
while len(intersecting_faces) > 0 and counter < args.max_iterations:
if (args.with_rounding):
involved_vertices = np.unique(mesh.faces[intersecting_faces].ravel());
mesh.vertices_ref[involved_vertices, :] =\
np.round(mesh.vertices[involved_vertices, :],
args.precision//2);
mesh = pymesh.resolve_self_intersection(mesh, "igl");
mesh, __ = pymesh.remove_duplicated_faces(mesh, fins_only=True);
if (args.with_rounding):
mesh = pymesh.form_mesh(
np.round(mesh.vertices, args.precision),
mesh.faces);
intersecting_faces = pymesh.detect_self_intersection(mesh);
counter += 1;
if len(intersecting_faces) > 0:
logging.warn("Resolving failed: max iteration reached!");
pymesh.save_mesh(args.out_mesh, mesh);
def split_disconnected_meshes(mesh):
connected_faces = []
for _ in range(mesh.num_vertices):
connected_faces.append([])
for face in mesh.faces:
for i in range(3):
connected_faces[face[i]].append(face)
connected = np.zeros(mesh.num_vertices, dtype=bool)
indexes_match = np.subtract(np.zeros(mesh.num_vertices), 1)
vertices = []
faces = []
# Add a first face to the list of conneccted faces
q = deque([mesh.faces[0][0]])
connected[mesh.faces[0][0]] = True
# Perform a Breadth-First-Search on the faces
while len(q) > 0:
vertice = q.pop()
for face in connected_faces[vertice]:
i1, vertices, indexes_match = find_index_or_add(
face[0], indexes_match, vertices, mesh.vertices)
i2, vertices, indexes_match = find_index_or_add(
face[1], indexes_match, vertices, mesh.vertices)
i3, vertices, indexes_match = find_index_or_add(
face[2], indexes_match, vertices, mesh.vertices)
if [i1, i2, i3] not in faces:
faces.append([i1, i2, i3])
for i in range(3):
if not connected[face[i]]:
connected[face[i]] = True
q.appendleft(face[i])
# Get on sub-mesh where all the faces are connected
resulting_mesh = pymesh.form_mesh(np.array(vertices), np.array(faces))
remaining_faces = []
# List all the faces that do not belong to this specific sub-mesh
for face in mesh.faces:
if not connected[face[0]]:
remaining_faces.append(face)
meshes = [resulting_mesh]
# If there are still faces that have not been considered restart the process only on those faces
if len(remaining_faces) != 0:
remaining_mesh = pymesh.form_mesh(np.array(mesh.vertices),
np.array(remaining_faces))
meshes.extend(split_disconnected_meshes(remaining_mesh))
return meshes
def repousse(mesh, logger):
cell_ids = mesh.get_attribute("cell").ravel().astype(int);
mesh.add_attribute("edge_length");
tol = np.amax(mesh.get_attribute("edge_length")) * 0.1;
bbox_min, bbox_max = mesh.bbox;
scaling = 2.0 / norm(bbox_max - bbox_min);
start_time = time();
num_cells = np.amax(cell_ids)+1;
results = [];
for i in range(num_cells):
to_keep = np.arange(mesh.num_faces, dtype=int)[cell_ids == i];
if not np.any(to_keep):
continue;
cut_mesh = pymesh.submesh(mesh, to_keep, 0);
pymesh.save_mesh("debug.msh", cut_mesh);
cut_mesh, __ = pymesh.remove_degenerated_triangles(cut_mesh, 100);
cut_mesh, __ = pymesh.split_long_edges(cut_mesh, tol);
dof = cut_mesh.num_vertices;
assembler = pymesh.Assembler(cut_mesh);
L = assembler.assemble("laplacian");
M = assembler.assemble("mass");
L_rhs = M * np.ones(dof) * -0.5;
bd_indices = cut_mesh.boundary_vertices;
n = len(bd_indices);
C = scipy.sparse.coo_matrix((np.ones(n),
(np.arange(n, dtype=int), bd_indices)), shape=(n, dof));
C_rhs = np.zeros(n);
A = scipy.sparse.bmat([
[-L, C.T],
[C, None]
]);
rhs = np.concatenate((L_rhs.ravel(), C_rhs));
solver = pymesh.SparseSolver.create("SparseLU");
solver.compute(A);
x = solver.solve(rhs);
z = x[:dof].reshape((-1, 1));
vertices = np.hstack((cut_mesh.vertices, z));
out_mesh = pymesh.form_mesh(vertices, cut_mesh.faces);
results.append(out_mesh);
finish_time = time();
t = finish_time - start_time;
logger.info("Repousse running time: {}".format(t));
mesh = pymesh.merge_meshes(results);
vertices = mesh.vertices[:,:2];
mesh_2d = pymesh.form_mesh(vertices, mesh.faces);
pymesh.save_mesh("out_2d.msh", mesh_2d)
return mesh;
def repousse(mesh, logger):
cell_ids = mesh.get_attribute("cell").ravel().astype(int)
mesh.add_attribute("edge_length")
tol = np.amax(mesh.get_attribute("edge_length")) * 0.1
bbox_min, bbox_max = mesh.bbox
scaling = 2.0 / norm(bbox_max - bbox_min)
start_time = time()
num_cells = np.amax(cell_ids) + 1
results = []
for i in range(num_cells):
to_keep = np.arange(mesh.num_faces, dtype=int)[cell_ids == i]
if not np.any(to_keep):
continue
cut_mesh = pymesh.submesh(mesh, to_keep, 0)
pymesh.save_mesh("debug.msh", cut_mesh)
cut_mesh, __ = pymesh.remove_degenerated_triangles(cut_mesh, 100)
cut_mesh, __ = pymesh.split_long_edges(cut_mesh, tol)
dof = cut_mesh.num_vertices
assembler = pymesh.Assembler(cut_mesh)
L = assembler.assemble("laplacian")
M = assembler.assemble("mass")
L_rhs = M * np.ones(dof) * -0.5
bd_indices = cut_mesh.boundary_vertices
n = len(bd_indices)
C = scipy.sparse.coo_matrix(
(np.ones(n), (np.arange(n, dtype=int), bd_indices)),
shape=(n, dof))
C_rhs = np.zeros(n)
A = scipy.sparse.bmat([[-L, C.T], [C, None]])
rhs = np.concatenate((L_rhs.ravel(), C_rhs))
solver = pymesh.SparseSolver.create("SparseLU")
solver.compute(A)
x = solver.solve(rhs)
z = x[:dof].reshape((-1, 1))
vertices = np.hstack((cut_mesh.vertices, z))
out_mesh = pymesh.form_mesh(vertices, cut_mesh.faces)
results.append(out_mesh)
finish_time = time()
t = finish_time - start_time
logger.info("Repousse running time: {}".format(t))
mesh = pymesh.merge_meshes(results)
vertices = mesh.vertices[:, :2]
mesh_2d = pymesh.form_mesh(vertices, mesh.faces)
pymesh.save_mesh("out_2d.msh", mesh_2d)
return mesh
def genellip(a=1, b=1, c=1, N=250, sigma=0.125, ell=0.3, gid=1):
nodes = sphere_points(n=N)
elements = ch(nodes).simplices
elements = surface_fix(nodes, elements)
M = np.diag([a, b, c])
nodes = np.dot(M, nodes.T).T
ellipsoid = pymesh.form_mesh(nodes, elements)
nodes = deform_mesh(ellipsoid, a, b, c, sigma, ell, gid)
gellip = pymesh.form_mesh(nodes, ellipsoid.elements)
tris = gellip.elements
return nodes, tris
def map_cell_attribute(xyz, connect, attribute, decimated):
mesh = pymesh.form_mesh(xyz, connect)
mesh.add_attribute("face_scalar")
mesh.set_attribute("face_scalar", attribute)
decimated_xyz, decimated_connect, _ = poly_data_to_unstr(decimated)
decimated_mesh = pymesh.form_mesh(decimated_xyz, decimated_connect)
pymesh.map_face_attribute(mesh, decimated_mesh, "face_scalar")
print('attributes in new mesh mapped')
return decimated_xyz, decimated_connect, decimated_mesh.get_attribute(
"face_scalar")
def main():
args = parse_args()
mesh = pymesh.load_mesh(args.input_mesh)
if mesh.vertex_per_face == 4:
logging.warning("Converting quad mesh to triangle mesh.")
mesh = pymesh.quad_to_tri(mesh)
if args.exact:
name, ext = os.path.splitext(args.output_mesh)
exact_mesh_file = name + ".xml"
else:
exact_mesh_file = None
if mesh.num_vertices == 0 or mesh.num_faces == 0:
# Empty input mesh, output empty mesh as well.
result = pymesh.form_mesh(np.zeros((0, 3), dtype=float),
np.zeros((0, 3), dtype=int))
if args.timing:
update_info(args.output_mesh, 0)
else:
if args.engine == "igl":
empty = pymesh.form_mesh(np.zeros((0, 3)), np.zeros((0, 3)))
r = pymesh.boolean(mesh,
empty,
"union",
engine=args.engine,
with_timing=args.timing,
exact_mesh_file=exact_mesh_file)
else:
# Empty mesh is valid for these libraries, using bbox instead.
bbox = mesh.bbox
center = (bbox[0] + bbox[1]) * 0.5
box = pymesh.generate_box_mesh(bbox[0] - np.ones(mesh.dim),
bbox[1] + np.ones(mesh.dim))
r = pymesh.boolean(mesh,
box,
"intersection",
engine=args.engine,
with_timing=args.timing,
exact_mesh_file=exact_mesh_file)
if args.timing:
result, timing = r
update_info(args.output_mesh, timing)
else:
result = r
pymesh.save_mesh(args.output_mesh, result)
def carve_mesh(target_mesh, block, N, batch_size, out_name,
initial_N=0, save_intermediate=True, debug=False):
name, ext = os.path.splitext(out_name);
tree = pymesh.AABBTree();
tree.load_mesh(target_mesh);
dodecahedron = pymesh.generate_dodecahedron(1.0, np.zeros(3));
vertices = dodecahedron.vertices;
faces = dodecahedron.faces;
for i in range(initial_N, N, batch_size):
pts = block.vertices;
squared_dist, face_indices, closest_pts = \
tree.look_up_with_closest_points(pts);
n = np.min([batch_size, N-i, len(pts)]);
indices = np.argsort(squared_dist)[::-1][:n];
radii = np.sqrt(squared_dist[indices]);
centers = pts[indices, :];
to_remove = [pymesh.form_mesh(
np.dot(pymesh.Quaternion(numpy.random.rand(4)).to_matrix(), vertices.T * r).T + p, faces)
for r,p in zip(radii, centers)];
to_remove = pymesh.merge_meshes(to_remove);
if debug:
pymesh.save_mesh("deubg_block.msh", block);
pymesh.save_mesh("deubg_cut.msh", to_remove);
block = pymesh.boolean(block, to_remove, "difference", engine="igl");
block, __ = pymesh.collapse_short_edges(block, 1e-12, False);
if save_intermediate:
pymesh.save_mesh("{}_{:06}{}".format(name, i, ext), block);
return block;
def sphere_perturb(sphere, devrand, aratio1, aratio2):
#devrand = 0.05 # how far to perturb each vertex
nv = len(sphere.vertices)
f = sphere.faces
v = np.copy(sphere.vertices)
# add perturbations to x,y,z to all vertices
for i in range(nv):
dx = devrand * random.uniform(-1, 1)
dy = devrand * random.uniform(-1, 1)
dz = devrand * random.uniform(-1, 1)
v[i, 0] += dx
v[i, 1] += dy
v[i, 2] += dz
# aratio1 = c/a this gives c = aratio1*a
# aratio2 = b/a this gives b = aratio2*a
# volume = 4/3 pi a*b*c for an ellipsoid
# vol = 1*aratio1*aratio2
# rad_cor = pow(vol,-1./3.)
# v[:,2] *= aratio1*rad_cor # make oblate, adjusts z coords
# v[:,1] *= aratio2*rad_cor # make elongated in xy plane , adjusts y coords
# v[:,0] *= rad_cor # adjusts x coords
# volume should now stay the same
sub_com(v) # subtract center of mass from vertex positions
psphere = pymesh.form_mesh(v, f)
psphere.add_attribute("face_area")
psphere.add_attribute("face_normal")
psphere.add_attribute("face_centroid")
sbody = body_stretch(psphere, aratio1, aratio2) # do the stretching
return sbody
def triangulate(wires, engine, stage, eps, logger, wire_file, json_file):
if wires.num_vertices == 0:
return pymesh.form_mesh(np.zeros((0, 2)), np.zeros((0,3)));
basename = os.path.splitext(wire_file)[0];
if engine == "triwild":
out_mesh = "{}_linear.msh".format(basename);
log_file = "{}_triwild.log".format(basename);
if json_file is not None:
command = "TriWild --choice TRI --is-log 0 --epsilon {} --stage {} --log-file {} --int-edge-length 20 --feature-input {} --output-debug-mesh=0 --skip-eps --input {} --output {}".format(
eps, stage, log_file, json_file, wire_file, basename);
else:
command = "TriWild --choice TRI --is-log 0 --epsilon {} --stage {} --log-file {} --int-edge-length 20 --output-debug-mesh=0 --skip-eps --input {} --output {}".format(
eps, stage, log_file, wire_file, basename);
print(command);
start_time = time();
check_call(command.split());
finish_time = time();
t = finish_time - start_time;
mesh = pymesh.load_mesh(out_mesh, drop_zero_dim=True);
else:
mesh, t = pymesh.triangulate_beta(wires.vertices, wires.edges,
engine=engine, with_timing=True);
logger.info("Triangulation running time: {}".format(t));
return mesh;
def frontMesh(data, distance, cos, height, ratio):
vertices = []
faces = []
for i in range(len(data['vertices'])):
y = data['vertices'][i][1] * ratio
z = data['vertices'][i][0] * ratio
c = cos
s = -math.sqrt(1 - c * c)
x = distance * 2 / cos
vertices.append([c * x - s * y - distance, s * x + c * y + height, z])
#vertices.append([thickness,data['vertices'][i][1]*ratio,data['vertices'][i][0]*ratio])
vertices.append([-distance, height, 0])
vertices = np.array(vertices)
for i in range(len(data['triangles'])):
faces.append([
data['triangles'][i][0], data['triangles'][i][2],
data['triangles'][i][1]
])
for i in range(1500):
if i != 1499:
faces.append([i, len(data['vertices']), i + 1])
else:
faces.append([1499, len(data['vertices']), 0])
faces = np.array(faces)
return pymesh.form_mesh(vertices, faces)
def backMeshHR(data, distance, cos, height, ratio):
vertices = []
faces = []
for i in range(len(data['vertices'])):
y = data['vertices'][i][1] * ratio * 0.5
z = -data['vertices'][i][0] * ratio * 0.5
c = cos
s = math.sqrt(1 - c * c)
x = -distance / cos
vertices.append([c * x - s * y + distance, s * x + c * y + height, z])
#(data['vertices'][i][1]-42)*ratio,-data['vertices'][i][0]*ratio])
vertices.append([distance, height, 0])
vertices = np.array(vertices)
for i in range(len(data['triangles'])):
faces.append([
data['triangles'][i][0], data['triangles'][i][1],
data['triangles'][i][2]
])
for i in range(1500):
if i != 1499:
faces.append([i, i + 1, len(data['vertices'])])
else:
faces.append([1499, 0, len(data['vertices'])])
faces = np.array(faces)
return pymesh.form_mesh(vertices, faces)
def save_obj_file(path, verts, faces):
verts = verts.detach().cpu().numpy() if torch.is_tensor(verts) else verts
faces = faces.detach().cpu().numpy() if torch.is_tensor(faces) else faces
# import pymesh
pmesh = pymesh.form_mesh(verts, faces)
pymesh.save_mesh(path, pmesh)
def generate_mesh(self, latent_vector):
assert latent_vector.size(0) == 1, "input should have batch size 1!"
import pymesh
input_points = [
self.template[i].get_regular_points(self.nb_pts_in_primitive,
latent_vector.device)
for i in range(self.opt.nb_primitives)
]
input_points = [input_points[i] for i in range(self.opt.nb_primitives)]
# Deform each patch
output_points = [
self.decoder[i](input_points[i],
latent_vector.unsqueeze(2)).squeeze()
for i in range(0, self.opt.nb_primitives)
]
output_meshes = [
pymesh.form_mesh(vertices=output_points[i].transpose(
1, 0).contiguous().cpu().numpy(),
faces=self.template[i].mesh.faces)
for i in range(self.opt.nb_primitives)
]
# Deform return the deformed pointcloud
mesh = pymesh.merge_meshes(output_meshes)
return mesh
def __save_temp_mesh(self, active_view):
basename, ext = os.path.splitext(self.image_name);
path, name = os.path.split(basename);
now = datetime.datetime.now()
stamp = now.isoformat();
tmp_dir = tempfile.gettempdir();
tmp_mesh_name = os.path.join(tmp_dir, "{}_{}.ply".format(name,
stamp));
vertices = active_view.vertices;
faces = active_view.faces;
voxels = active_view.voxels;
dim = vertices.shape[1];
num_faces, vertex_per_face = faces.shape;
vertices = vertices[faces.ravel(order="C")];
colors = active_view.vertex_colors.reshape((-1, 4), order="C");
colors *= 255;
faces = np.arange(len(vertices), dtype=int).reshape(
(num_faces, vertex_per_face), order="C");
mesh = pymesh.form_mesh(vertices, faces);
mesh.add_attribute("red");
mesh.set_attribute("red", colors[:,0].ravel());
mesh.add_attribute("green");
mesh.set_attribute("green", colors[:,1].ravel());
mesh.add_attribute("blue");
mesh.set_attribute("blue", colors[:,2].ravel());
pymesh.save_mesh(tmp_mesh_name, mesh,
"red", "green", "blue", ascii=True, use_float=True, anonymous=True);
return tmp_mesh_name;
def minimize(A, b, markers, save_mesh=True):
start = timer()
x_0 = np.append(source_mesh.vertices.flatten(), [
calc_normal(source_mesh.vertices[source_mesh.faces[triangle]])[3]
for triangle in range(source_mesh.num_faces)
])
x_0 = set_marker_positions(x_0, markers)
x = sparse.linalg.lsqr(A, b, x0=x_0, show=True)[0]
x = set_marker_positions(x, markers)
end = timer()
print(end - start)
deformed_mesh = pymesh.form_mesh(
x[:source_mesh.num_vertices * 3].reshape(
(source_mesh.num_vertices, 3)), source_mesh.faces,
source_mesh.voxels)
deformed_mesh.add_attribute("vertex_normal")
deformed_mesh.enable_connectivity()
if save_mesh:
pymesh.save_mesh("source_mesh_deformed.obj", deformed_mesh)
return deformed_mesh
def output_patch_coords(subv, subf, subn, i, neigh_i, theta, rho):
"""
For debugging purposes, save a patch to visualize it.
"""
mesh = pymesh.form_mesh(subv, subf)
n1 = subn[:, 0]
n2 = subn[:, 1]
n3 = subn[:, 2]
mesh.add_attribute('vertex_nx')
mesh.set_attribute('vertex_nx', n1)
mesh.add_attribute('vertex_ny')
mesh.set_attribute('vertex_ny', n2)
mesh.add_attribute('vertex_nz')
mesh.set_attribute('vertex_nz', n3)
rho = np.array([rho[0, ix] for ix in range(rho.shape[1]) if ix in neigh_i])
mesh.add_attribute('rho')
mesh.set_attribute('rho', rho)
theta = np.array(
[theta[ix] for ix in range((theta.shape[0])) if ix in neigh_i])
mesh.add_attribute('theta')
mesh.set_attribute('theta', theta)
charge = np.zeros(len(neigh_i))
mesh.add_attribute('charge')
mesh.set_attribute('charge', charge)
pymesh.save_mesh('v{}.ply'.format(i),
mesh,
*mesh.get_attribute_names(),
use_float=True,
ascii=True)
def extrude(mesh, depth, logger):
start_time = time();
num_vertices = mesh.num_vertices;
num_faces = mesh.num_faces;
top_vertices = mesh.vertices;
top_faces = mesh.faces;
if mesh.dim == 2:
top_vertices = np.hstack((top_vertices, np.zeros((mesh.num_vertices, 1))));
bottom_vertices = np.copy(top_vertices);
bottom_vertices[:,2] -= depth;
bottom_faces = top_faces[:,[0,2,1]] + num_vertices;
bd_edges = mesh.boundary_edges;
bd_faces = np.array([
[e[1], e[0], e[0]+num_vertices,
e[0]+num_vertices, e[1]+num_vertices, e[1] ]
for e in bd_edges]).reshape((-1, 3), order="C");
vertices = np.vstack([top_vertices, bottom_vertices]);
faces = np.vstack([top_faces, bottom_faces, bd_faces]);
finish_time = time();
t = finish_time - start_time;
logger.info("Extrusion running time: {}".format(t));
return pymesh.form_mesh(vertices, faces);
def _shape_similarity(self, element1, element2):
"""
Similarity function that compares the bounding boxes of
<element1> and <element2>
Inputs:
element1 (ProjectObject)
element2 (ProjectObject)
Return:
float - bounding box IoU (Equation 1 in SUMO white paper)
"""
# quick intersection test. If bounding boxes don't overlap on any single axis,
# then the enclosed object cannot overlap
bbox1 = element1.posed_bbox
bbox2 = element2.posed_bbox
for axis in range(3):
if (bbox1.min_corner[axis] > bbox2.max_corner[axis]) or \
(bbox2.min_corner[axis] > bbox1.max_corner[axis]):
return 0
box1 = _bbox2pymesh(element1)
box2 = _bbox2pymesh(element2)
inter = pymesh.boolean(box1, box2, operation='intersection')
ivert, ifaces, _ = remove_duplicated_vertices_raw(
inter.vertices, inter.faces)
inter_mesh = pymesh.form_mesh(ivert, ifaces)
# Note: pymesh may give -volume depending on surface normals
# or maybe vertex ordering
intersection = abs(inter_mesh.volume)
union = abs(box1.volume) + abs(box2.volume) - intersection
return intersection / union
def tet_to_hex(mesh):
in_vertices = mesh.vertices
in_voxels = mesh.voxels
out_vertices = []
out_voxels = []
hexes = np.array([[0, 6, 12, 4, 5, 11, 14,
13], [4, 12, 8, 1, 13, 14, 10, 7],
[6, 3, 8, 12, 11, 9, 10, 14],
[5, 2, 9, 11, 13, 7, 10, 14]])
for i, tet in enumerate(in_voxels):
corners = in_vertices[tet]
e01 = (corners[0] + corners[1]) / 2.0
e02 = (corners[0] + corners[2]) / 2.0
e03 = (corners[0] + corners[3]) / 2.0
e12 = (corners[1] + corners[2]) / 2.0
e13 = (corners[3] + corners[1]) / 2.0
e23 = (corners[2] + corners[3]) / 2.0
f0 = (corners[1] + corners[2] + corners[3]) / 3.0
f1 = (corners[0] + corners[2] + corners[3]) / 3.0
f2 = (corners[0] + corners[1] + corners[3]) / 3.0
f3 = (corners[0] + corners[1] + corners[2]) / 3.0
center = np.mean(corners, axis=0).reshape((1, -1))
out_vertices += [
corners, e01, e02, e03, e12, e13, e23, f0, f1, f2, f3, center
]
out_voxels.append(hexes + i * 15)
out_vertices = np.vstack(out_vertices)
out_voxels = np.vstack(out_voxels)
out_vertices, out_voxels, __ = pymesh.remove_duplicated_vertices_raw(
out_vertices, out_voxels)
mesh = pymesh.form_mesh(out_vertices, None, out_voxels)
return mesh
def read_room_obj(obj_fn, room_parts_dir):
import pymesh
#mesh0 = pymesh.load_mesh(obj_fn)
mesh_parts = read_obj_parts(obj_fn)
bboxs_roomparts = [part['bbox'] for part in mesh_parts]
room_name = os.path.splitext(os.path.basename(obj_fn))[0]
is_save_part = False
if is_save_part:
print(f'save room parts in:\n {room_parts_dir}')
for i in range(len(mesh_parts)):
part_i = mesh_parts[i]
bbox_i = part_i['bbox']
part_bbox_fn = os.path.join(
room_parts_dir,
'bbox_' + room_name + '_' + part_i['name'] + '.ply')
Bbox3D.save_bbox_ply(part_bbox_fn, bbox_i, 'Y')
for i in range(len(mesh_parts)):
part_i = mesh_parts[i]
mesh_i = pymesh.form_mesh(part_i['vertices'], part_i['face_vidx'])
mesh_i.add_attribute('face_norm')
mesh_i.set_attribute('face_norm', part_i['face_norms'])
part_obj_fn = os.path.join(
room_parts_dir, room_name + '_' + part_i['name'] + '.ply')
pymesh.save_mesh(part_obj_fn, mesh_i, ascii=True, use_float=True)
return bboxs_roomparts
def define_model(self, ):
opts = self.opts
self.img_size = opts.img_size
self.model = icn_net.ICPNet(opts)
self.load_network(self.model, 'pred', self.opts.num_train_epoch)
self.model.cuda()
self.upsample_img_size = ((opts.img_size // 64) * (2**6),
(opts.img_size // 64) * (2**6))
self.camera_solver = geom_utils.CameraSolver(self.Tensor, self.device)
self.offset_z = 5.0
self.uv2points = cub_parse.UVTo3D(self.mean_shape)
self.model_obj = pymesh.form_mesh(
self.mean_shape['verts'].data.cpu().numpy(),
self.mean_shape['faces'].data.cpu().numpy())
self.model_obj_path = osp.join(self.opts.cachedir, 'cub', 'model',
'mean_bird.obj')
self.grid = cub_parse.get_sample_grid(self.upsample_img_size).repeat(
opts.batch_size, 1, 1, 1).to(self.device)
self.init_render()
# self.verts_obj = self.mean_shape['verts']
# faces_np = self.mean_shape['faces'].data.cpu().numpy()
# verts_np = self.mean_shape['verts'].data.cpu().numpy()
# self.vis_rend = bird_vis.VisRenderer(opts.img_size, faces_np)
# uv_sampler = mesh.compute_uvsampler(verts_np, faces_np, tex_size=opts.tex_size)
# uv_sampler = torch.from_numpy(uv_sampler).float().cuda()
# self.uv_sampler = uv_sampler.view(-1, len(faces_np), opts.tex_size*opts.tex_size, 2)
self.model.eval()
# self.render_mean_bird_with_uv()
return
def test_cube_refine(self):
vertices = np.array([[0.0, 0.0, 0.0], [1.0, 0.0, 0.0], [1.0, 1.0, 0.0],
[0.0, 1.0, 0.0], [0.0, 0.0, 1.0], [1.0, 0.0, 1.0],
[1.0, 1.0, 1.0], [0.0, 1.0, 1.0]])
# A cube can be splitted into 5 tets or 6 tets without adding steiner
# points. We start with 5 tets and see if tetgen can refine it to the 6
# tet configuration.
tets = np.array([[0, 1, 2, 5], [0, 2, 3, 7], [4, 7, 5, 0],
[5, 7, 6, 2], [0, 5, 2, 7]],
dtype=int)
mesh = pymesh.form_mesh(vertices, np.array([]), tets)
mesh.add_attribute("voxel_volume")
volumes = mesh.get_attribute("voxel_volume")
self.assertAlmostEqual(1.0, np.sum(volumes))
tetgen = pymesh.tetgen()
tetgen.points = mesh.vertices
tetgen.triangles = mesh.faces
tetgen.tetrahedra = mesh.voxels
tetgen.max_tet_volume = 0.17
tetgen.max_num_steiner_points = 0
tetgen.split_boundary = False
tetgen.verbosity = 0
tetgen.run()
mesh = tetgen.mesh
mesh.add_attribute("voxel_volume")
volumes = mesh.get_attribute("voxel_volume")
self.assertAlmostEqual(1.0, np.sum(volumes))
# No tetgen cannot recover the 6 tet configuration...
# So tet_volume constaint is actually not satisfied by the result.
self.assertEqual(8, len(tetgen.vertices))
self.assertEqual(5, len(tetgen.voxels))
def extrude(mesh, depth, logger):
start_time = time()
num_vertices = mesh.num_vertices
num_faces = mesh.num_faces
top_vertices = mesh.vertices
top_faces = mesh.faces
if mesh.dim == 2:
top_vertices = np.hstack((top_vertices, np.zeros(
(mesh.num_vertices, 1))))
bottom_vertices = np.copy(top_vertices)
bottom_vertices[:, 2] -= depth
bottom_faces = top_faces[:, [0, 2, 1]] + num_vertices
bd_edges = mesh.boundary_edges
bd_faces = np.array([[
e[1], e[0], e[0] + num_vertices, e[0] + num_vertices,
e[1] + num_vertices, e[1]
] for e in bd_edges]).reshape((-1, 3), order="C")
vertices = np.vstack([top_vertices, bottom_vertices])
faces = np.vstack([top_faces, bottom_faces, bd_faces])
finish_time = time()
t = finish_time - start_time
logger.info("Extrusion running time: {}".format(t))
return pymesh.form_mesh(vertices, faces)
def carve_mesh(target_mesh, block, N, batch_size, out_name,
initial_N=0, save_intermediate=True, debug=False):
name, ext = os.path.splitext(out_name);
tree = pymesh.AABBTree();
tree.load_mesh(target_mesh);
dodecahedron = pymesh.generate_dodecahedron(1.0, np.zeros(3));
vertices = dodecahedron.vertices;
faces = dodecahedron.faces;
for i in range(initial_N, N, batch_size):
pts = block.vertices;
squared_dist, face_indices, closest_pts = \
tree.look_up_with_closest_points(pts);
n = np.min([batch_size, N-i, len(pts)]);
indices = np.argsort(squared_dist)[::-1][:n];
radii = np.sqrt(squared_dist[indices]);
centers = pts[indices, :];
to_remove = [pymesh.form_mesh(
np.dot(pymesh.Quaternion(numpy.random.rand(4)).to_matrix(), vertices.T * r).T + p, faces)
for r,p in zip(radii, centers)];
to_remove = pymesh.merge_meshes(to_remove);
if debug:
pymesh.save_mesh("deubg_block.msh", block);
pymesh.save_mesh("deubg_cut.msh", to_remove);
block = pymesh.boolean(block, to_remove, "difference", engine="igl");
block, __ = pymesh.collapse_short_edges(block, 1e-12, False);
if save_intermediate:
pymesh.save_mesh("{}_{:06}{}".format(name, i, ext), block);
return block;
def __save_temp_mesh(self, active_view):
basename, ext = os.path.splitext(self.image_name)
path, name = os.path.split(basename)
now = datetime.datetime.now()
stamp = now.isoformat()
tmp_dir = tempfile.gettempdir()
ext = ".serialized"
tmp_mesh_name = os.path.join(tmp_dir,
"{}_{}{}".format(name, stamp, ext))
vertices = active_view.vertices
faces = active_view.faces
voxels = active_view.voxels
dim = vertices.shape[1]
num_faces, vertex_per_face = faces.shape
vertices = vertices[faces.ravel(order="C")]
colors = active_view.vertex_colors.reshape((-1, 4), order="C")
faces = np.arange(len(vertices), dtype=int).reshape(
(num_faces, vertex_per_face), order="C")
mesh = pymesh.form_mesh(vertices, faces)
if self.with_texture_coordinates:
uvs = active_view.texture_coordinates
else:
uvs = None
data = serialize_mesh(mesh, None, colors, uvs)
with open(tmp_mesh_name, 'wb') as fout:
fout.write(data)
return tmp_mesh_name, ext
def get_one(self, path, subsamplemesh=False):
if path in self.cache:
return self.cache[path]
else:
try:
h5_f = h5py.File(path)
if (self.maxnverts != -1 and h5_f['verts'].shape[0] > self.maxnverts) or (self.maxntris != -1 and h5_f['tris'].shape[0] > self.maxntris):
raise Exception()
verts, tris = h5_f['verts'][:], h5_f['tris'][:]
except:
h5_f.close()
self.cache[path] = None
return None
if self.normalize:
centroid = None
verts, _ = self.pc_normalize(verts, centroid)
if subsamplemesh:
mesh = pymesh.form_mesh(verts, tris)
mesh, _ = pymesh.split_long_edges(mesh, 0.05)
verts, tris = mesh.vertices, mesh.faces
if (self.maxnverts != -1 and verts.shape[0] > self.maxnverts) or (self.maxntris != -1 and tris.shape[0] > self.maxntris):
return None
if len(self.cache) < self.cache_size:
self.cache[path] = (verts, tris)
h5_f.close()
return verts, tris
def _shape_similarity(self, element1, element2):
"""
Similarity function that compares the bounding boxes of
<element1> and <element2>
Inputs:
element1 (ProjectObject)
element2 (ProjectObject)
Return:
float - bounding box IoU (Equation 1 in SUMO white paper)
"""
box1 = _bbox2pymesh(element1)
box2 = _bbox2pymesh(element2)
inter = pymesh.boolean(box1,
box2,
operation='intersection',
engine='cgal')
ivert, ifaces, _ = remove_duplicated_vertices_raw(
inter.vertices, inter.faces)
inter_mesh = pymesh.form_mesh(ivert, ifaces)
# Note: pymesh may give -volume depending on surface normals
# or maybe vertex ordering
intersection = abs(inter_mesh.volume)
union = abs(box1.volume) + abs(box2.volume) - intersection
return intersection / union
def tilt_obliq(mesh, obliquity, phi, phi_prec):
f = mesh.faces
v = np.copy(mesh.vertices)
nv = len(v)
# precession angle is phi_prec
axist = np.array([np.cos(phi_prec), np.sin(phi_prec), 0])
qt = pymesh.Quaternion.fromAxisAngle(axist, obliquity)
zaxis = np.array([0, 0, 1])
zrot = qt.rotate(zaxis) # body principal axis will become zrot
# spin rotation about now tilted principal body axis
qs = pymesh.Quaternion.fromAxisAngle(zrot, phi)
# loop over all vertices and do two rotations
for i in range(nv):
v[i] = qt.rotate(v[i]) # tilt it over
v[i] = qs.rotate(v[i]) # spin
new_mesh = pymesh.form_mesh(v, f)
new_mesh.add_attribute("face_area")
new_mesh.add_attribute("face_normal")
new_mesh.add_attribute("face_centroid")
return new_mesh, zrot
def triangulate(wires, engine, stage, eps, logger, wire_file, json_file):
if wires.num_vertices == 0:
return pymesh.form_mesh(np.zeros((0, 2)), np.zeros((0, 3)))
basename = os.path.splitext(wire_file)[0]
if engine == "triwild":
out_mesh = "{}_linear.msh".format(basename)
log_file = "{}_triwild.log".format(basename)
if json_file is not None:
command = "TriWild --mute-log --feature-envelope-r {} --stage {} --log-file {} --feature-input {} --output-linear-mesh --skip-eps --input {} --output {}".format(
eps, stage, log_file, json_file, wire_file, basename)
else:
command = "TriWild --mute-log --feature-envelope-r {} --stage {} --log-file {} --output-linear-mesh --skip-eps --input {} --output {}".format(
eps, stage, log_file, wire_file, basename)
print(command)
start_time = time()
check_call(command.split())
finish_time = time()
t = finish_time - start_time
mesh = pymesh.load_mesh(out_mesh, drop_zero_dim=True)
else:
mesh, t = pymesh.triangulate_beta(wires.vertices,
wires.edges,
engine=engine,
with_timing=True)
logger.info("Triangulation running time: {}".format(t))
return mesh
def main():
args = parse_args();
mesh = pymesh.load_mesh(args.input_mesh);
if mesh.vertex_per_face == 4:
logging.warning("Converting quad mesh to triangle mesh.");
mesh = pymesh.quad_to_tri(mesh);
if args.exact:
name,ext = os.path.splitext(args.output_mesh);
exact_mesh_file = name + ".xml";
else:
exact_mesh_file = None;
if mesh.num_vertices ==0 or mesh.num_faces == 0:
# Empty input mesh, output empty mesh as well.
result = pymesh.form_mesh(np.zeros((0,3),dtype=float),
np.zeros((0,3),dtype=int));
if args.timing:
update_info(args.output_mesh, 0);
else:
if args.engine == "igl":
empty = pymesh.form_mesh(np.zeros((0,3)), np.zeros((0,3)));
r = pymesh.boolean(
mesh, empty, "union", engine=args.engine,
with_timing = args.timing,
exact_mesh_file=exact_mesh_file);
else:
# Empty mesh is valid for these libraries, using bbox instead.
bbox = mesh.bbox;
center = (bbox[0] + bbox[1]) * 0.5;
box = pymesh.generate_box_mesh(
bbox[0] - np.ones(mesh.dim),
bbox[1] + np.ones(mesh.dim));
r = pymesh.boolean(
mesh, box, "intersection", engine=args.engine,
with_timing = args.timing,
exact_mesh_file=exact_mesh_file);
if args.timing:
result, timing = r;
update_info(args.output_mesh, timing);
else:
result = r;
pymesh.save_mesh(args.output_mesh, result);
def fit_into_unit_sphere(mesh):
bbox_min, bbox_max = mesh.bbox;
bbox_radius = numpy.linalg.norm(bbox_max - bbox_min) * 0.5;
bbox_center = 0.5 * (bbox_min + bbox_max);
if bbox_radius == 0.0:
raise IOError("Input mesh is degenerate to a single point.");
vertices = mesh.vertices;
tris = mesh.faces;
tets = mesh.voxels;
vertices = (vertices - bbox_center) / bbox_radius;
return pymesh.form_mesh(vertices, tris, tets);
def single_triangle_2D_setup(self):
vertices = np.array([
[0.0, 0.0],
[1.0, 0.0],
[0.0, 1.0],
]);
faces = np.array([
[0, 1, 2]
]);
mesh = form_mesh(vertices, faces);
material = Material.create_isotropic(2, 1.0, 1.0, 0.0);
assembler = Assembler(mesh, material);
return assembler;
def main():
args = parse_args();
scale = np.ones(3) * args.scale;
if args.scale_x is not None:
scale[0] = args.scale_x;
if args.scale_y is not None:
scale[1] = args.scale_y;
if args.scale_z is not None:
scale[2] = args.scale_z;
mesh = pymesh.load_mesh(args.input_mesh);
mesh = pymesh.form_mesh(mesh.vertices * scale, mesh.faces, mesh.voxels);
pymesh.save_mesh(args.output_mesh, mesh);
def test_face_to_voxel(self):
vertices = np.array([
[0.0, 0.0, 0.0],
[1.0, 0.0, 0.0],
[0.0, 1.0, 0.0],
[0.0, 0.0, 1.0],
]);
voxels = np.array([[0,1,2,3]],dtype=int);
mesh = form_mesh(vertices, np.zeros((0, 3)), voxels);
attr = np.ones(mesh.num_faces);
attr2 = convert_to_voxel_attribute(mesh, attr).ravel();
self.assert_array_equal([1], attr2);
def extract_intersecting_faces(mesh, selection):
face_pairs = pymesh.detect_self_intersection(mesh);
selected_faces = np.zeros(mesh.num_faces, dtype=bool);
if selection is not None:
selected_pairs = np.any(face_pairs == selection, axis=1);
face_pairs = face_pairs[selected_pairs];
selected_faces[face_pairs[:,0]] = True;
selected_faces[face_pairs[:,1]] = True;
faces = mesh.faces[selected_faces];
intersecting_mesh = pymesh.form_mesh(mesh.vertices, faces);
intersecting_mesh, __ = pymesh.remove_isolated_vertices(intersecting_mesh);
return intersecting_mesh;
def main():
args = parse_args();
mesh = pymesh.load_mesh(args.input_mesh);
assert(mesh.has_attribute("corner_texture"));
mesh.enable_connectivity();
vertices = np.copy(mesh.vertices);
bad_vertex = np.logical_not(np.all(np.isfinite(mesh.vertices), axis=1));
bad_vertex_indices = np.arange(mesh.num_vertices, dtype=int)[bad_vertex];
for i in bad_vertex_indices:
adj_v = mesh.get_vertex_adjacent_vertices(i);
adj_v = adj_v[np.logical_not(bad_vertex[adj_v])];
vertices[i] = np.mean(vertices[adj_v,:], axis=0);
out_mesh = pymesh.form_mesh(vertices, mesh.faces);
if mesh.has_attribute("corner_texture"):
faces = mesh.faces;
uv = np.copy(mesh.get_attribute("corner_texture").reshape((-1, 2)));
bad_uv = np.logical_not(np.all(np.isfinite(uv), axis=1));
bad_uv_indices = np.arange(len(uv), dtype=int)[bad_uv];
for i in bad_uv_indices:
fi = i // mesh.vertex_per_face;
ci = i % mesh.vertex_per_face;
vi = faces[fi, ci];
adj_f = mesh.get_vertex_adjacent_faces(vi);
adj_c = [adj_f[j]*mesh.vertex_per_face +
np.argwhere(f==vi).ravel()[0]
for j,f in enumerate(faces[adj_f, :])];
adj_c = np.array(adj_c, dtype=int);
adj_c = adj_c[np.logical_not(bad_uv[adj_c])];
if len(adj_c) > 0:
uv[i] = np.mean(uv[adj_c,:], axis=0);
else:
# All corner uv at this vertex is NaN. Average the one-ring instead.
adj_c = [adj_f[j]*mesh.vertex_per_face +
(np.argwhere(f==vi).ravel()[0]+1)%mesh.vertex_per_face
for j,f in enumerate(faces[adj_f, :])];
adj_c += [adj_f[j]*mesh.vertex_per_face +
(np.argwhere(f==vi).ravel()[0]+2)%mesh.vertex_per_face
for j,f in enumerate(faces[adj_f, :])];
adj_c = np.array(adj_c, dtype=int);
adj_c = adj_c[np.logical_not(bad_uv[adj_c])];
uv[i] = np.mean(uv[adj_c,:], axis=0);
out_mesh.add_attribute("corner_texture");
out_mesh.set_attribute("corner_texture", uv);
pymesh.save_mesh(args.output_mesh, out_mesh);
def main():
args = parse_args();
mesh_1 = pymesh.load_mesh(args.input_mesh_1);
mesh_2 = pymesh.load_mesh(args.input_mesh_2);
assert(mesh_1.dim == 3);
assert(mesh_2.dim == 3);
bbox_min_1, bbox_max_1 = mesh_1.bbox;
bbox_min_2, bbox_max_2 = mesh_2.bbox;
bbox_min = np.minimum(bbox_min_1, bbox_min_2);
bbox_max = np.maximum(bbox_max_1, bbox_max_2);
#queries = grid_sample(bbox_min, bbox_max, args.num_samples);
queries = random_sample(bbox_min, bbox_max, args.num_samples);
winding_number_1 = pymesh.compute_winding_number(mesh_1, queries,
engine=args.winding_number_engine) > 0.5;
winding_number_2 = pymesh.compute_winding_number(mesh_2, queries,
engine=args.winding_number_engine) > 0.5;
diff = np.logical_xor(winding_number_1, winding_number_2);
num_diff = np.count_nonzero(diff);
print("Winding numbers of {} out of {} samples differ".format(
num_diff, len(queries)));
if args.output is not None:
r = np.amax(bbox_max - bbox_min) * 0.01;
box = pymesh.generate_box_mesh(np.ones(3) * -r, np.ones(3) * r);
vertices = [];
faces = [];
for i in range(len(queries)):
vertices.append(box.vertices + queries[i]);
faces.append(box.faces + box.num_vertices * i);
vertices = np.vstack(vertices);
faces = np.vstack(faces);
mesh = pymesh.form_mesh(vertices, faces);
mesh.add_attribute("diff");
mesh.set_attribute("diff", np.repeat(diff, box.num_faces));
pymesh.save_mesh(args.output, mesh, "diff");
if args.export:
info = load_info(args.input_mesh_2);
info["diff"] = num_diff
dump_info(args.input_mesh_2, info);
if args.timing:
pymesh.timethis.summarize();
def test_2D_meshes(self):
vertices = np.array([
[0.0, 0.0],
[1.0, 0.0],
[1.0, 1.0],
[0.0, 1.0] ], dtype=float);
faces = np.array([
[0, 1, 2],
[0, 2, 3] ], dtype=int);
mesh_1 = form_mesh(vertices, faces);
out_mesh = merge_meshes([mesh_1] * 3);
self.assertEqual(mesh_1.num_vertices * 3, out_mesh.num_vertices);
self.assertEqual(mesh_1.num_faces * 3, out_mesh.num_faces);
self.assertEqual(mesh_1.num_voxels * 3, out_mesh.num_voxels);
def main():
args = parse_args();
in_mesh = load_mesh(args.input_mesh);
in_mesh.add_attribute("vertex_normal");
v_normals = in_mesh.get_vertex_attribute("vertex_normal");
out_mesh = form_mesh(in_mesh.vertices, np.zeros((0, 3), dtype=int));
out_mesh.add_attribute("nx");
out_mesh.add_attribute("ny");
out_mesh.add_attribute("nz");
out_mesh.set_attribute("nx", v_normals[:,0].ravel());
out_mesh.set_attribute("ny", v_normals[:,1].ravel());
out_mesh.set_attribute("nz", v_normals[:,2].ravel());
save_mesh(args.output_mesh, out_mesh, "nx", "ny", "nz");
def tutte_3D(mesh, bd_vertex_indices, bd_vertex_positions):
assembler = pymesh.Assembler(mesh);
L = assembler.assemble("laplacian");
is_constraint = np.zeros(mesh.num_vertices, dtype=bool);
is_constraint[bd_vertex_indices] = True;
is_variable = np.logical_not(is_constraint);
M, rhs = init_harmonic_system(L, bd_vertex_indices, bd_vertex_positions, is_variable);
x = solve(M, rhs, "SparseLU", 1e-6);
out_vertices = np.zeros((mesh.num_vertices, 3));
out_vertices[is_constraint,:] = bd_vertex_positions;
out_vertices[is_variable,:] = x;
return pymesh.form_mesh(out_vertices, np.zeros((0, 3)), mesh.voxels);
def test_square(self):
vertices = np.array([
[ 0.0, 0.0, 0.0],
[ 1.0, 0.0, 0.0],
[ 0.0, 1.0, 0.0],
[ 1.0, 1.0, 0.0],
], dtype=float);
faces = np.array([
[0, 1, 2],
[2, 1, 3],
], dtype=int);
mesh = form_mesh(vertices, faces);
cutted_mesh = cut_mesh(mesh, [0, 1]);
self.assertEqual(6, cutted_mesh.num_vertices);
self.assertEqual(2, cutted_mesh.num_components);
def test_anonymous(self):
vertices = np.array([
[0.0, 0.0, 0.0],
[1.0, 0.0, 0.0],
[0.0, 1.0, 0.0],
]);
faces = np.array([[0, 1, 2]]);
mesh = form_mesh(vertices, faces);
for ext in [".msh", ".obj", ".ply", ".mesh", ".off"]:
mesh1 = self.write_and_load(mesh,
"anonymous_test{}".format(ext), use_ascii=True,
anonymous=True);
self.assert_mesh_equal(mesh, mesh1);
mesh2 = self.write_and_load(mesh,
"anonymous_test{}".format(ext), use_ascii=False,
anonymous=True);
self.assert_mesh_equal(mesh, mesh2);
def test_refine(self):
vertices = np.array([
[0, 0, 0],
[1, 0, 1],
[1, 1, 1],
[0, 1, 0] ], dtype=float);
faces = np.array([
[0, 1, 2],
[0, 2, 3] ]);
in_mesh = pymesh.form_mesh(vertices, faces);
out_mesh = retriangulate(in_mesh, 0.1);
self.assertLess(in_mesh.num_vertices, out_mesh.num_vertices);
self.assertLess(in_mesh.num_faces, out_mesh.num_faces);
in_mesh.add_attribute("face_area");
in_areas = in_mesh.get_attribute("face_area");
out_mesh.add_attribute("face_area");
out_areas = out_mesh.get_attribute("face_area");
self.assertAlmostEqual(np.sum(in_areas), np.sum(out_areas));
def test_cube_refine(self):
vertices = np.array([
[0.0, 0.0, 0.0],
[1.0, 0.0, 0.0],
[1.0, 1.0, 0.0],
[0.0, 1.0, 0.0],
[0.0, 0.0, 1.0],
[1.0, 0.0, 1.0],
[1.0, 1.0, 1.0],
[0.0, 1.0, 1.0] ]);
# A cube can be splitted into 5 tets or 6 tets without adding steiner
# points. We start with 5 tets and see if tetgen can refine it to the 6
# tet configuration.
tets = np.array([
[0, 1, 2, 5],
[0, 2, 3, 7],
[4, 7, 5, 0],
[5, 7, 6, 2],
[0, 5, 2, 7]
], dtype=int);
mesh = pymesh.form_mesh(vertices, np.array([]), tets);
mesh.add_attribute("voxel_volume");
volumes = mesh.get_attribute("voxel_volume");
self.assertAlmostEqual(1.0, np.sum(volumes));
tetgen = pymesh.tetgen();
tetgen.points = mesh.vertices;
tetgen.triangles = mesh.faces;
tetgen.tetrahedra = mesh.voxels;
tetgen.max_tet_volume = 0.17;
tetgen.max_num_steiner_points = 0;
tetgen.split_boundary = False;
tetgen.verbosity = 0;
tetgen.run();
mesh = tetgen.mesh;
mesh.add_attribute("voxel_volume");
volumes = mesh.get_attribute("voxel_volume");
self.assertAlmostEqual(1.0, np.sum(volumes));
# No tetgen cannot recover the 6 tet configuration...
# So tet_volume constaint is actually not satisfied by the result.
self.assertEqual(8, len(tetgen.vertices));
self.assertEqual(5, len(tetgen.voxels));
def repousse_all(mesh, logger):
cell_ids = mesh.get_attribute("cell").ravel().astype(int);
mesh.add_attribute("edge_length");
tol = np.amax(mesh.get_attribute("edge_length")) * 0.1;
out_mesh, info = pymesh.remove_degenerated_triangles(mesh, 100);
cell_ids = cell_ids[info["ori_face_indices"]].ravel();
mesh, info = pymesh.split_long_edges(out_mesh, tol);
cell_ids = cell_ids[info["ori_face_indices"]].ravel();
mesh.enable_connectivity();
is_border = [len(np.unique(cell_ids[mesh.get_vertex_adjacent_faces(vi)])) > 1
for vi in range(mesh.num_vertices)];
start_time = time();
dof = mesh.num_vertices;
assembler = pymesh.Assembler(mesh);
L = assembler.assemble("laplacian");
M = assembler.assemble("mass");
L_rhs = M * np.ones(dof) * -1 * 1e-1;
bd_indices = np.arange(mesh.num_vertices, dtype=int)[is_border];
n = len(bd_indices);
C = scipy.sparse.coo_matrix((np.ones(n),
(np.arange(n, dtype=int), bd_indices)), shape=(n, dof));
C_rhs = np.zeros(n);
A = scipy.sparse.bmat([
[-L, C.T],
[C, None]
]);
rhs = np.concatenate((L_rhs.ravel(), C_rhs));
solver = pymesh.SparseSolver.create("SparseLU");
solver.compute(A);
x = solver.solve(rhs);
z = x[:dof].reshape((-1, 1));
vertices = np.hstack((mesh.vertices, z));
finish_time = time();
t = finish_time - start_time;
logger.info("Repousse running time: {}".format(t));
return pymesh.form_mesh(vertices, mesh.faces);
def main():
args = parse_args();
mesh = pymesh.load_mesh(args.input_mesh);
if args.initial_block is not None:
block = pymesh.load_mesh(args.initial_block);
else:
bbox_min, bbox_max = mesh.bbox;
block = pymesh.generate_box_mesh(bbox_min, bbox_max, 2, keep_symmetry=True);
block = pymesh.form_mesh(block.vertices, block.faces);
block, __ = pymesh.remove_isolated_vertices(block);
carved = carve_mesh(mesh, block, args.N,
args.batch_size,
args.output_mesh,
args.initial_N,
args.save_intermediate,
args.debug);
pymesh.save_mesh(args.output_mesh, carved);
def test_face_connectivity(self):
vertices = np.array([
[0, 0, 0],
[1, 0, 0],
[0, 1, 0],
[0, 0, 1],
[1, 1, 1],
], dtype=float);
faces = np.array([
[0, 1, 2],
[2, 3, 4],
]);
mesh = form_mesh(vertices, faces);
components = separate_mesh(mesh, "vertex");
self.assertEqual(1, len(components));
components = separate_mesh(mesh, "face");
self.assertEqual(2, len(components));
def test_tet_connectivity(self):
vertices = np.array([
[0, 0, 0],
[1, 0, 0],
[0, 1, 0],
[1, 1, 0],
[0, 0, 1] ]);
voxels = np.array([
[0, 2, 1, 4],
[1, 2, 3, 4]
]);
mesh = pymesh.form_mesh(vertices, np.array([]), voxels);
mesh.enable_connectivity();
self.assertEqual(5, mesh.num_vertices);
self.assertEqual(6, mesh.num_faces);
self.assertEqual(2, mesh.num_voxels);
self.assert_array_equal([1], mesh.get_voxel_adjacent_voxels(0));
self.assert_array_equal([0], mesh.get_voxel_adjacent_voxels(1));
def test_3D_area_attribute(self):
vertices = np.array([
[0.0, 0.0, 0.1],
[1.0, 0.0, 0.1],
[0.0, 1.0, 0.1] ]);
faces = np.array([
[0, 1, 2],
[0, 0, 1],
[1, 0, 2]
]);
mesh = pymesh.form_mesh(vertices, faces);
mesh.add_attribute("face_area");
self.assertTrue(mesh.has_attribute("face_area"));
areas = mesh.get_face_attribute("face_area").ravel();
self.assertEqual(3, len(areas));
self.assertAlmostEqual(0.5, areas[0]);
self.assertAlmostEqual(0, areas[1]);
self.assertAlmostEqual(0.5, areas[2]);
def extract_submesh(mesh, face_indices, n_ring):
vertices = mesh.vertices;
selected_faces = np.zeros(mesh.num_faces, dtype=bool);
selected_faces[face_indices] = True;
ring_index = np.zeros(mesh.num_faces, dtype=int);
ring_index[selected_faces] += 1;
for i in range(n_ring):
selected_faces = expand_by_one_ring(mesh, selected_faces);
ring_index[selected_faces] += 1;
selected_face_indices = np.arange(mesh.num_faces)[selected_faces];
faces = mesh.faces[selected_faces];
ring_index = (ring_index[selected_faces] - n_ring - 1) * (-1);
vertices, faces, __ = pymesh.remove_isolated_vertices_raw(vertices, faces);
mesh = pymesh.form_mesh(vertices, faces);
mesh.add_attribute("ori_face_index");
mesh.set_attribute("ori_face_index", selected_face_indices);
mesh.add_attribute("ring");
mesh.set_attribute("ring", ring_index);
return mesh;
def main():
args = parse_args();
mesh = pymesh.load_mesh(args.input_mesh);
pymesh.is_vertex_manifold(mesh);
pymesh.is_edge_manifold(mesh);
faces = mesh.faces;
edge_manifold = mesh.get_attribute("edge_manifold").reshape((-3,
mesh.vertex_per_face));
is_edge_nonmanifold = np.any(edge_manifold==0, axis=1);
involved_faces = faces[is_edge_nonmanifold];
mesh.add_attribute("faces_adj_nonmanifold_edge");
mesh.set_attribute("faces_adj_nonmanifold_edge", is_edge_nonmanifold);
print("Faces adjacent to nonmanifold edges");
print("Indices: {}".format(np.arange(mesh.num_faces)[is_edge_nonmanifold]));
print(involved_faces);
pymesh.save_matrix("nonmanifold_edges.dmat", involved_faces);
vertex_manifold = mesh.get_attribute("vertex_manifold").ravel();
is_vertex_nonmanifold = np.any(vertex_manifold[faces] == 0, axis=1);
involved_faces = faces[is_vertex_nonmanifold];
mesh.add_attribute("faces_adj_nonmanifold_vertex");
mesh.set_attribute("faces_adj_nonmanifold_vertex", is_vertex_nonmanifold);
print("Faces adjacent to nonmanifold vertices");
print("Indices: {}".format(np.arange(mesh.num_faces)[is_vertex_nonmanifold]));
print(involved_faces);
pymesh.save_matrix("nonmanifold_vertices.dmat", involved_faces);
pymesh.save_mesh(args.output_mesh, mesh, *mesh.attribute_names);
if args.debug_output is not None:
debug_faces = faces[is_edge_nonmanifold];
debug_mesh = pymesh.form_mesh(mesh.vertices, debug_faces);
pymesh.save_mesh(args.debug_output, debug_mesh);
def tet_to_hex(mesh):
in_vertices = mesh.vertices
in_voxels = mesh.voxels
out_vertices = []
out_voxels = []
hexes = np.array(
[
[0, 6, 12, 4, 5, 11, 14, 13],
[4, 12, 8, 1, 13, 14, 10, 7],
[6, 3, 8, 12, 11, 9, 10, 14],
[5, 2, 9, 11, 13, 7, 10, 14],
]
)
for i, tet in enumerate(in_voxels):
corners = in_vertices[tet]
e01 = (corners[0] + corners[1]) / 2.0
e02 = (corners[0] + corners[2]) / 2.0
e03 = (corners[0] + corners[3]) / 2.0
e12 = (corners[1] + corners[2]) / 2.0
e13 = (corners[3] + corners[1]) / 2.0
e23 = (corners[2] + corners[3]) / 2.0
f0 = (corners[1] + corners[2] + corners[3]) / 3.0
f1 = (corners[0] + corners[2] + corners[3]) / 3.0
f2 = (corners[0] + corners[1] + corners[3]) / 3.0
f3 = (corners[0] + corners[1] + corners[2]) / 3.0
center = np.mean(corners, axis=0).reshape((1, -1))
out_vertices += [corners, e01, e02, e03, e12, e13, e23, f0, f1, f2, f3, center]
out_voxels.append(hexes + i * 15)
out_vertices = np.vstack(out_vertices)
out_voxels = np.vstack(out_voxels)
out_vertices, out_voxels, __ = pymesh.remove_duplicated_vertices_raw(out_vertices, out_voxels)
mesh = pymesh.form_mesh(out_vertices, None, out_voxels)
return mesh
def bevel(wires, logger, remove_holes, dist):
bbox_min, bbox_max = wires.bbox;
#wires = uniform_sampling(wires);
mesh = constrained_triangulate(wires, logger, remove_holes);
cell_ids = mesh.get_attribute("cell").ravel().astype(int);
num_cells = np.amax(cell_ids) + 1;
comps = [];
for i in range(num_cells):
to_keep = np.arange(mesh.num_faces, dtype=int)[cell_ids == i];
if not np.any(to_keep):
continue;
cut_mesh = pymesh.submesh(mesh, to_keep, 0);
bd_edges = cut_mesh.boundary_edges;
vertices, edges, __ = pymesh.remove_isolated_vertices_raw(
cut_mesh.vertices, bd_edges);
bd_wires = pymesh.wires.WireNetwork.create_from_data(vertices, edges);
offset_dir = np.zeros((bd_wires.num_vertices, 2));
for ei in edges:
v0 = ei[0];
v1 = ei[1];
adj_vts = bd_wires.get_vertex_neighbors(v0);
if len(adj_vts) == 2:
if adj_vts[0] == v1:
vp = adj_vts[1];
else:
vp = adj_vts[0];
e0 = vertices[v1] - vertices[v0];
e1 = vertices[vp] - vertices[v0];
e0 /= norm(e0);
e1 /= norm(e1);
theta = math.atan2(e0[0]*e1[1] - e0[1]*e1[0], e0.dot(e1));
if abs(theta) > 0.99 * math.pi:
offset = np.array([-e0[1], e0[0]]);
scale = 1.0;
else:
if theta > 0:
offset = e0 + e1;
scale = math.sin(theta/2);
else:
offset = -e0 - e1
scale = math.cos(math.pi/2 + theta/2);
offset /= norm(offset);
offset_dir[v0] = offset * dist / scale;
offset_vertices = vertices + offset_dir;
vertices = np.vstack((vertices, offset_vertices));
edges = np.vstack((edges, edges + bd_wires.num_vertices));
vertices, edges, __ = pymesh.remove_duplicated_vertices_raw(
vertices, edges, dist/2);
comp_wires = pymesh.wires.WireNetwork.create_from_data(vertices, edges);
comp = constrained_triangulate(comp_wires, logger, True);
comps.append(comp);
mesh = pymesh.merge_meshes(comps);
bd_vertices = mesh.boundary_vertices;
is_inside = np.ones(mesh.num_vertices, dtype=bool);
is_inside[bd_vertices] = False;
vertices = np.hstack((mesh.vertices, np.zeros((mesh.num_vertices, 1))));
vertices[is_inside, 2] = dist;
mesh = pymesh.form_mesh(vertices, mesh.faces);
return mesh;