def mesh_area(mesh):
if mesh:
sc = pgl.SurfComputer(pgl.Discretizer())
mesh.apply(sc)
return sc.surface
else:
return None
def plot(self, dfvox, dfmap, minval=None, maxval=None):
output = pandas.merge(dfmap, dfvox)
output = output.sort_values(
'primitive_index'
) # sort is needed to ensure matching with triangulation indices
par = output['PAR']
if minval is None:
minval = min(par)
if maxval is None:
maxval = max(par)
cmap = ColorMap()
scene = pgl.Scene()
discretizer = pgl.Discretizer()
for sh in self.scene:
discretizer.process(sh)
mesh = discretizer.result
mesh.colorList = []
mesh.colorPerVertex = False
colors = map(lambda x: cmap(x, minval, maxval, 250., 20.),
par[output['shape_id'] == sh.id])
for color in colors:
r, g, b = color
mesh.colorList.append(pgl.Color4(r, g, b, 0))
scene.add(mesh)
pgl.Viewer.display(scene)
return scene
def scene_transform(self):
""" Transform scene for RATP input
return entity, x,y,z,surface, nitrogen, sh_id lists
"""
def _surf(mesh, iface):
A,B,C = [mesh.pointList[i] for i in mesh.indexAt(iface)]
return pgl.norm(pgl.cross(B-A, C-A)) / 2.0
def _normal(mesh, iface):
A,B,C = [mesh.pointList[i] for i in mesh.indexAt(iface)]
n = pgl.cross(B-A, C-A)
return n.normed()
def _process(shape, discretizer):
discretizer.process(shape)
mesh = discretizer.result
ifaces = range(mesh.indexListSize())
s = [_surf(mesh,i) * self.convert**2 for i in ifaces]
a = float(sum(s)) / self.convert**2
phi = [pgl.Vector3.Spherical(_normal(mesh,i)).phi for i in ifaces]
sh_id = [shape.id] * len(s)
n = [self.nitrogen[shape.id]] * len(s)
entity = [self.entity[shape.id] - 1] * len(s) # entity 1 is encoded 0 in fill grid
scale_area = [float(self.area.get(shape.id, a)) / a] * len(s)
centers = [mesh.faceCenter(i) for i in ifaces]
x, y, z = zip(*map(lambda x: (x[0] * self.convert, x[1] * self.convert, x[2] * self.convert), centers))
s = (numpy.array(s) * numpy.array(scale_area)).tolist()
return entity, x, y, z, s, n, sh_id, phi
d = pgl.Discretizer()
transform = map(lambda x: _process(x,d), self.scene)
return map(lambda what: reduce(lambda x,y : x+y, what), zip(*transform))
def pointsByShape(scene): #aka ptdiscretize
"""renvoie un dictionnaire Shape_id:[liste de points]"""
d = pgl.Discretizer()
pbs = {}
for i in scene:
if i.apply(d) == True:
pts = d.getDiscretization().pointList #yield a pgl.Point3Array
if pts:
pbs[i.id] = pts
return pbs
def as_scene_mesh(pgl_scene):
""" Transform a PlantGL scene / PlantGL shape dict to a scene_mesh"""
discretizer = pgl.Discretizer()
if isinstance(pgl_scene, pgl.Scene):
return {sh.id: shape_mesh(sh, discretizer) for sh in pgl_scene}
elif isinstance(pgl_scene, dict):
return {
sh_id: shape_mesh(sh, discretizer)
for sh_id, sh in pgl_scene.iteritems()
}
else:
return pgl_scene
def leaf_shape(leaf, nb_triangles, length_max, length, radius_max):
if length <= 0:
return
x, y, s, r = leaf
leaf_new, leaf_surface = fit2(x, y, s, r)
pts, ind = mesh2(leaf_new, length_max, length, radius_max)
if len(pts) <= 1.5 * nb_triangles:
pts2, ind2 = pts, ind
else:
pts2, ind2 = qslim(nb_triangles, pts, ind)
# pts2, ind2 = pts, ind
mesh = plantgl_shape(pts2, ind2)
sc = pgl.SurfComputer(pgl.Discretizer())
mesh.apply(sc)
scale_radius = leaf_surface * length_max * radius_max / (sc.surface)
mesh_final = mesh.transform(pgl.Scaling((1, scale_radius, 1)))
mesh_final = mesh
return mesh_final
def shape_mesh(pgl_shape, discretiser=None):
if discretiser is None:
discretiser = pgl.Discretizer()
discretiser.process(pgl_shape)
tset = discretiser.result
return numpy.array(tset.pointList), numpy.array(tset.indexList)