def viz_network_scalar(centres,
scalars,
weights,
obsmask,
surfs,
view='topdown',
size=(1000, 1000),
cmap='viridis',
vmin=None,
vmax=None):
vp.embedWindow(False)
if vmin is None:
vmin = np.min(scalars)
if vmax is None:
vmax = np.max(scalars)
vlines, vmeshes = viz_structure(centres, weights, surfs, w_perc=3)
nreg = centres.shape[0]
# Regions
vpoints = []
for i in range(nreg):
if not obsmask[i]:
vpoints.append(
vp.Sphere(centres[i],
r=4,
c=vp.colorMap(scalars[i], cmap, vmin, vmax)))
else:
vpoints.append(
vp.Cube(centres[i],
side=6,
c=vp.colorMap(scalars[i], cmap, vmin, vmax)))
if view == 'topdown':
args = dict(elevation=0, azimuth=0, roll=0, zoom=1.4)
elif view == 'leftright':
args = dict(elevation=0, azimuth=270, roll=90, zoom=1.4)
elif view == 'rightleft':
args = dict(elevation=0, azimuth=90, roll=270, zoom=1.4)
else:
raise ValueError(f"Unexpected view: {view}")
vplotter = vp.Plotter(axes=0, offscreen=True, size=size)
vplotter.show(vpoints, vlines, vmeshes, N=1, **args)
img = vp.screenshot(None, scale=1, returnNumpy=True)
vp.clear()
vp.closePlotter()
return img
def viz_param_manifold(filename, size):
data = np.load(filename)
vline = vp.Tube(data['boundary_hns'], r=0.08)
vline.color('g')
# HNS manifold
vmesh_hns = vp.Mesh([data['verts_hns'], data['triangs_hns']])
k = 3
prior = (2 * np.pi)**(-k / 2) * (np.exp(
-0.5 * np.sum(vmesh_hns.points()**2, axis=1)))
vmesh_hns.pointColors(prior, cmap='Reds', vmin=0)
vmesh_hns.addScalarBar(horizontal=True,
nlabels=6,
c='k',
pos=(0.74, 0.01),
titleFontSize=44)
vmesh_hns.scalarbar.SetLabelFormat("%.2g")
vmesh_hns.scalarbar.SetBarRatio(1.0)
# Inverted HNS manifold
vmesh_hnsi = vp.Mesh([data['verts_hnsi'], data['triangs_hnsi']])
# vmesh_hnsi.color([0.68, 0.68, 0.68])
vmesh_hnsi.color([0.9, 0.9, 0.9]).alpha(0.0)
# Invisible points to set the extent
vpoints = vp.Points([(-5.01, -5.01, -5.01), (5.01, 5.01, 5.01)]).alpha(0.0)
vplotter = vp.Plotter(offscreen=True,
size=size,
axes=dict(xyGrid=True,
yzGrid=True,
zxGrid=True,
xTitleSize=0,
yTitleSize=0,
zTitleSize=0,
xHighlightZero=True,
yHighlightZero=True,
zHighlightZero=True,
xHighlightZeroColor='b',
yHighlightZeroColor='b',
zHighlightZeroColor='b',
numberOfDivisions=10,
axesLineWidth=5,
tipSize=0.02,
gridLineWidth=2,
xLabelSize=0.05,
yLabelSize=0.05,
zLabelSize=0.05,
xLabelOffset=0.05,
yLabelOffset=0.05,
zLabelOffset=0.0,
zTitleRotation=225))
vlabels = [
vp.Text2D("H", (0.09 * size[0], 0.10 * size[1]), s=3, font='Arial'),
vp.Text2D("N", (0.87 * size[0], 0.16 * size[1]), s=3, font='Arial'),
vp.Text2D("S", (0.49 * size[0], 0.90 * size[1]), s=3, font='Arial')
]
k = 2
vecs = np.array([[[0, 0, 0, 0, 0, 0], [0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0]],
[[k, -k, 0, 0, 0, 0], [0, 0, k, -k, 0, 0],
[0, 0, 0, 0, k, -k]]])
varrows = vp.Arrows(vecs[0].T, vecs[1].T, s=1.2, c='k')
vp.show([vline, vmesh_hns, vmesh_hnsi, vpoints, varrows] + vlabels,
camera=dict(pos=(16, 13, 20),
focalPoint=(0, 0, 1.5),
viewup=(0, 0, 1)))
img = vp.screenshot(None, scale=1, returnNumpy=True)
vp.clear()
vp.closePlotter()
return img
def viz_observation_manifold(t3, tlim, size):
tmin = 0
tmax = 2 * tlim
# tlim line
vline1 = vp.Tube([[tmin, tlim, t3], [tmax, tlim, t3]], r=2.0)
vline1.color('g')
# t = 0 line
vline2 = vp.Tube([[tmin, tlim, t3], [tmin, tmax, t3]], r=2.0)
vline2.color((1, 1, 1))
# Manifold
verts = [[tmin, tlim, t3], [tmax, tlim, t3], [tmin, tmax, t3],
[tmax, tmax, t3]]
triangs = [[0, 1, 3], [0, 3, 2]]
vmesh1 = vp.Mesh([verts, triangs])
vmesh1.color((1, 1, 1))
# Inverse manifold
verts = [[tmin, tmin, t3], [tmax, tmin, t3], [tmin, tlim, t3],
[tmax, tlim, t3]]
triangs = [[0, 1, 3], [0, 3, 2]]
vmesh2 = vp.Mesh([verts, triangs])
vmesh2.color((0.9, 0.9, 0.9)).alpha(0.0)
# Invisible points to set the extent
vpoints = vp.Points([(tmin - 0.1, tmin - 0.1, tmin - 0.1),
(1.01 * tmax, 1.01 * tmax, 1.01 * tmax)]).alpha(0.0)
lpos = [(p, str(p)) for p in [0, 50, 100, 150]]
vplotter = vp.Plotter(offscreen=True,
size=size,
axes=dict(xyGrid=True,
yzGrid=True,
zxGrid=True,
xTitleSize=0,
yTitleSize=0,
zTitleSize=0,
xPositionsAndLabels=lpos,
yPositionsAndLabels=lpos,
zPositionsAndLabels=lpos[1:],
axesLineWidth=5,
tipSize=0.02,
gridLineWidth=2,
xLabelSize=0.05,
yLabelSize=0.05,
zLabelSize=0.05,
xLabelOffset=0.05,
yLabelOffset=0.05,
zLabelOffset=0.0,
zTitleRotation=225))
vlabels = [
vp.Text2D("H", (0.09 * size[0], 0.10 * size[1]), s=3, font='Arial'),
vp.Text2D("N", (0.87 * size[0], 0.16 * size[1]), s=3, font='Arial'),
vp.Text2D("S", (0.49 * size[0], 0.90 * size[1]), s=3, font='Arial')
]
vp.show([vline1, vline2, vmesh1, vpoints] + vlabels,
camera=dict(pos=(378, 324, 450),
focalPoint=(tlim, tlim, tlim + 27),
viewup=(0, 0, 1)))
img = vp.screenshot(None, scale=1, returnNumpy=True)
vp.clear()
vp.closePlotter()
return img
def close(self):
closePlotter()
