def parse_trace(fname):
''' Parse McStas trace output from stdin and write results
to file objects csv_comps and csv_lines '''
color = 0
# map from component name to (position, rotation matrix)
comps = {}
# active (position, rotation matrix)
comp = (np.array([0, 0, 0]), np.array([1, 0, 0, 0, 1, 0, 0, 0,
1]).reshape(3, 3))
# previous neutron position
prev = None
skip = False
# we are drawing a neutron
active = False
xstate = []
ystate = []
zstate = []
circlePoints = vtk.vtkPoints()
circleLines = vtk.vtkCellArray()
circle_pid = 0
multiPoints = vtk.vtkPoints()
multiLines = vtk.vtkCellArray()
multi_pid = 0
neutronPoints = vtk.vtkPoints()
neutronLines = vtk.vtkCellArray()
neutron_pid = 0
f = open(fname, 'r')
lines = f.readlines()
for i, line in enumerate(lines):
if not line:
break
line = line.strip()
# register components
if line.startswith(UC_COMP):
# grab info line
info = lines[i + 1]
assert info[:4] == 'POS:'
nums = [x.strip() for x in info[4:].split(',')]
# extract fields
name = line[len(UC_COMP):].strip(' "\n')
pos = np.array([float(x) for x in nums[:3]])
# read flat 3x3 rotation matrix
rot = np.array([float(x) for x in nums[3:3 + 9]]).reshape(3, 3)
comps[name] = (pos, rot)
# switch perspective
elif line.startswith(MC_COMP):
color += 1
comp = comps[line[len(MC_COMP) + 1:]]
elif line.startswith(MC_COMP_SHORT):
name = line[len(MC_COMP_SHORT) + 1:].strip('"')
comp = comps[name]
skip = True
# process multiline
elif line.startswith(MC_LINE):
points = parse_multiline(line[len(MC_LINE):].strip('()'))
points.pop(0)
coords = rotate_points(points, comp)
beg = multi_pid
for p in coords:
multiPoints.InsertNextPoint(p)
multi_pid += 1
end = multi_pid
for idx in range(beg, end - 1):
vline = vtk.vtkLine()
vline.GetPointIds().SetId(0, idx)
vline.GetPointIds().SetId(1, idx + 1)
multiLines.InsertNextCell(vline)
# process circle
elif line.startswith(MC_CIRCLE):
xyz = 'xyz'
items = line[len(MC_CIRCLE):].strip('()').split(',')
# plane
pla = [xyz.find(a) for a in items[0].strip("''")]
# center and radius
pos = [float(x) for x in items[1:4]]
rad = float(items[4])
coords = draw_circle(pla, pos, rad, comp)
beg = circle_pid
for p in coords:
circlePoints.InsertNextPoint(p)
circle_pid += 1
end = circle_pid
for idx in range(beg, end - 1):
vline = vtk.vtkLine()
vline.GetPointIds().SetId(0, idx)
vline.GetPointIds().SetId(1, idx + 1)
circleLines.InsertNextCell(vline)
# activate neutron when it enters
elif line.startswith(MC_ENTER):
prev = None
skip = True
active = True
color = 0
xstate = []
ystate = []
zstate = []
# deactivate neutron when it leaves
elif line.startswith(MC_LEAVE):
coords = np.column_stack([xstate, ystate, zstate])
beg = neutron_pid
for p in coords:
neutronPoints.InsertNextPoint(p)
neutron_pid += 1
end = neutron_pid
for idx in range(beg, end - 1):
vline = vtk.vtkLine()
vline.GetPointIds().SetId(0, idx)
vline.GetPointIds().SetId(1, idx + 1)
neutronLines.InsertNextCell(vline)
active = False
prev = None
elif line.startswith(MC_ABSORB):
pass
# register state and scatter
elif line.startswith(MC_STATE) or line.startswith(MC_SCATTER):
if not active:
continue
if skip:
skip = False
continue
xyz = [float(x) for x in line[line.find(':') + 1:].split(',')[:3]]
xyz = rotate(xyz, comp)
if prev is not None:
xstate.append(xyz[0])
ystate.append(xyz[1])
zstate.append(xyz[2])
prev = xyz
xstate.append(prev[0])
ystate.append(prev[1])
zstate.append(prev[2])
f.close()
circlePolydata = vtk.vtkPolyData()
circlePolydata.SetPoints(circlePoints)
circlePolydata.SetLines(circleLines)
circle_mapper = vtk.vtkPolyDataMapper()
try:
circle_mapper.SetInputData(circlePolydata) # VTK Python >= 6
except:
circle_mapper.SetInput(circlePolydata) # VTK Python >= 5.8
circle_actor = vtk.vtkActor()
circle_actor.SetMapper(circle_mapper)
circle_actor.GetProperty().SetAmbient(0.2)
circle_actor.GetProperty().SetDiffuse(0.5)
circle_actor.GetProperty().SetSpecular(0.3)
circle_actor.GetProperty().SetColor(0, 0.7, 0.7)
circle_actor.GetProperty().SetLineWidth(3)
multiPolydata = vtk.vtkPolyData()
multiPolydata.SetPoints(multiPoints)
multiPolydata.SetLines(multiLines)
multi_mapper = vtk.vtkPolyDataMapper()
try:
multi_mapper.SetInputData(multiPolydata)
except:
multi_mapper.SetInput(multiPolydata)
multi_actor = vtk.vtkActor()
multi_actor.SetMapper(multi_mapper)
multi_actor.GetProperty().SetAmbient(0.2)
multi_actor.GetProperty().SetDiffuse(0.5)
multi_actor.GetProperty().SetSpecular(0.3)
multi_actor.GetProperty().SetColor(1, 0, 0.5)
multi_actor.GetProperty().SetLineWidth(3)
neutronPolydata = vtk.vtkPolyData()
neutronPolydata.SetPoints(neutronPoints)
neutronPolydata.SetLines(neutronLines)
neutron_mapper = vtk.vtkPolyDataMapper()
try:
neutron_mapper.SetInputData(neutronPolydata)
except:
neutron_mapper.SetInput(neutronPolydata)
neutron_actor = vtk.vtkActor()
neutron_actor.SetMapper(neutron_mapper)
neutron_actor.GetProperty().SetAmbient(0.2)
neutron_actor.GetProperty().SetDiffuse(0.5)
neutron_actor.GetProperty().SetSpecular(0.3)
neutron_actor.GetProperty().SetColor(1, 1, 1)
neutron_actor.GetProperty().SetLineWidth(2)
renderer = vtk.vtkRenderer()
renderer.AddActor(circle_actor)
renderer.AddActor(multi_actor)
renderer.AddActor(neutron_actor)
renderer.SetBackground(0, 0, 0)
renwin = vtk.vtkRenderWindow()
renwin.AddRenderer(renderer)
iren = vtk.vtkRenderWindowInteractor()
istyle = vtk.vtkInteractorStyleTrackballCamera()
iren.SetInteractorStyle(istyle)
iren.SetRenderWindow(renwin)
iren.Initialize()
renwin.Render()
iren.Start()
def parse_trace():
''' Parse McStas trace output from stdin and write results
to file objects csv_comps and csv_lines '''
mpl.rcParams['legend.fontsize'] = 10
fig = plt.figure(figsize=plt.figaspect(0.5)*1.5)
ax = fig.gca(projection='3d')
ax.set_xlabel("z")
ax.set_ylabel("x")
ax.set_zlabel("y")
ax.set_aspect('equal')
# ax.autoscale_view(scalex=False, scaley=False, scalez=False)
color = 0
# map from component name to (position, rotation matrix)
comps = {}
# active (position, rotation matrix)
comp = (np.array([0, 0, 0]),
np.array([1, 0, 0,
0, 1, 0,
0, 0, 1]).reshape(3,3))
# previous neutron position
prev = None
skip = False
# we are drawing a neutron
active = False
xstate=[]
ystate=[]
zstate=[]
while True:
# read line
line = get_line()
if not line:
break
# register components
if line.startswith(UC_COMP):
# grab info line
info = get_line()
assert info[:4] == 'POS:'
nums = [x.strip() for x in info[4:].split(',')]
# extract fields
name = line[len(UC_COMP):].strip(' "\n')
pos = np.array([float(x) for x in nums[:3]])
# read flat 3x3 rotation matrix
rot = np.array([float(x) for x in nums[3:3+9]]).reshape(3, 3)
comps[name] = (pos, rot)
# switch perspective
elif line.startswith(MC_COMP):
color += 1
comp = comps[line[len(MC_COMP) + 1:]]
elif line.startswith(MC_COMP_SHORT):
name = line[len(MC_COMP_SHORT) + 1:].strip('"')
comp = comps[name]
skip = True
# process multiline
elif line.startswith(MC_LINE):
points = parse_multiline(line[len(MC_LINE):].strip('()'))
start = points.pop(0)
(x, y, z) = rotate_points(points, comp)
ax.plot(z, x, y)
# process circle
elif line.startswith(MC_CIRCLE):
xyz = 'xyz'
items = line[len(MC_CIRCLE):].strip('()').split(',')
# plane
pla = [xyz.find(a) for a in items[0].strip("''")]
# center and radius
pos = [float(x) for x in items[1:4]]
rad = float(items[4])
(x,y,z) = draw_circle(pla, pos, rad, comp)
ax.plot(z, x, y)
# activate neutron when it enters
elif line.startswith(MC_ENTER):
prev = None
skip = True
active = True
color = 0
xstate=[]
ystate=[]
zstate=[]
# deactivate neutron when it leaves
elif line.startswith(MC_LEAVE):
ax.plot(zstate, xstate, ystate)
active = False
prev = None
elif line.startswith(MC_ABSORB):
pass
# register state and scatter
elif line.startswith(MC_STATE) or line.startswith(MC_SCATTER):
if not active:
continue
if skip:
skip = False
continue
xyz = [float(x) for x in line[line.find(':')+1:].split(',')[:3]]
xyz = rotate(xyz, comp)
if prev is not None:
xstate.append(xyz[0])
ystate.append(xyz[1])
zstate.append(xyz[2])
prev = xyz
xstate.append(prev[0])
ystate.append(prev[1])
zstate.append(prev[2])
# kick out legacy "junk"
elif line.startswith(MC_MAGNIFY) or line.startswith(MC_START) or line.startswith(MC_END) or line.startswith(MC_STOP):
continue
else:
print line
# A little bit of logic for controlling the aspect ratios/view
(xmin, xmax)=ax.get_xlim3d()
(ymin, ymax)=ax.get_ylim3d()
(zmin, zmax)=ax.get_zlim3d()
dx = xmax - xmin
dy = ymax - ymin
dz = zmax - zmin
dmax=max(dx,dy,dz)
# Check ranges and define axis box of max length cubed
if dmax > dx:
mean=(xmax+xmin)/2
xmin=mean-dmax/2
xmax=mean+dmax/2
if dmax > dy:
mean=(ymax+ymin)/2
ymin=mean-dmax/2
ymax=mean+dmax/2
if dmax > dz:
mean=(zmax+zmin)/2
zmin=mean-dmax/2
zmax=mean+dmax/2
# Set new axis limits
ax.set_xlim3d(xmin,xmax)
ax.set_ylim3d(ymin,ymax)
ax.set_zlim3d(zmin,zmax)
plt.show()
def parse_trace(fname):
''' Parse McStas trace output from stdin and write results
to file objects csv_comps and csv_lines '''
color = 0
# map from component name to (position, rotation matrix)
comps = {}
# active (position, rotation matrix)
comp = (np.array([0, 0, 0]),
np.array([1, 0, 0,
0, 1, 0,
0, 0, 1]).reshape(3,3))
# previous neutron position
prev = None
skip = False
# we are drawing a neutron
active = False
xstate=[]
ystate=[]
zstate=[]
circlePoints = vtk.vtkPoints()
circleLines = vtk.vtkCellArray()
circle_pid = 0
multiPoints = vtk.vtkPoints()
multiLines = vtk.vtkCellArray()
multi_pid = 0
neutronPoints = vtk.vtkPoints()
neutronLines = vtk.vtkCellArray()
neutron_pid = 0
f = open(fname, 'r')
lines = f.readlines()
for i, line in enumerate(lines):
if not line:
break
line = line.strip()
# register components
if line.startswith(UC_COMP):
# grab info line
info = lines[i+1]
assert info[:4] == 'POS:'
nums = [x.strip() for x in info[4:].split(',')]
# extract fields
name = line[len(UC_COMP):].strip(' "\n')
pos = np.array([float(x) for x in nums[:3]])
# read flat 3x3 rotation matrix
rot = np.array([float(x) for x in nums[3:3+9]]).reshape(3, 3)
comps[name] = (pos, rot)
# switch perspective
elif line.startswith(MC_COMP):
color += 1
comp = comps[line[len(MC_COMP) + 1:]]
elif line.startswith(MC_COMP_SHORT):
name = line[len(MC_COMP_SHORT) + 1:].strip('"')
comp = comps[name]
skip = True
# process multiline
elif line.startswith(MC_LINE):
points = parse_multiline(line[len(MC_LINE):].strip('()'))
points.pop(0)
coords = rotate_points(points, comp)
beg = multi_pid
for p in coords:
multiPoints.InsertNextPoint(p)
multi_pid += 1
end = multi_pid
for idx in range(beg, end-1):
vline = vtk.vtkLine()
vline.GetPointIds().SetId(0,idx)
vline.GetPointIds().SetId(1,idx +1)
multiLines.InsertNextCell(vline)
# process circle
elif line.startswith(MC_CIRCLE):
xyz = 'xyz'
items = line[len(MC_CIRCLE):].strip('()').split(',')
# plane
pla = [xyz.find(a) for a in items[0].strip("''")]
# center and radius
pos = [float(x) for x in items[1:4]]
rad = float(items[4])
coords = draw_circle(pla, pos, rad, comp)
beg = circle_pid
for p in coords:
circlePoints.InsertNextPoint(p)
circle_pid += 1
end = circle_pid
for idx in range(beg, end-1):
vline = vtk.vtkLine()
vline.GetPointIds().SetId(0,idx)
vline.GetPointIds().SetId(1,idx +1)
circleLines.InsertNextCell(vline)
# activate neutron when it enters
elif line.startswith(MC_ENTER):
prev = None
skip = True
active = True
color = 0
xstate=[]
ystate=[]
zstate=[]
# deactivate neutron when it leaves
elif line.startswith(MC_LEAVE):
coords = np.column_stack([xstate, ystate, zstate])
beg = neutron_pid
for p in coords:
neutronPoints.InsertNextPoint(p)
neutron_pid += 1
end = neutron_pid
for idx in range(beg, end-1):
vline = vtk.vtkLine()
vline.GetPointIds().SetId(0,idx)
vline.GetPointIds().SetId(1,idx +1)
neutronLines.InsertNextCell(vline)
active = False
prev = None
elif line.startswith(MC_ABSORB):
pass
# register state and scatter
elif line.startswith(MC_STATE) or line.startswith(MC_SCATTER):
if not active:
continue
if skip:
skip = False
continue
xyz = [float(x) for x in line[line.find(':')+1:].split(',')[:3]]
xyz = rotate(xyz, comp)
if prev is not None:
xstate.append(xyz[0])
ystate.append(xyz[1])
zstate.append(xyz[2])
prev = xyz
xstate.append(prev[0])
ystate.append(prev[1])
zstate.append(prev[2])
f.close()
circlePolydata =vtk.vtkPolyData()
circlePolydata.SetPoints(circlePoints)
circlePolydata.SetLines(circleLines)
circle_mapper = vtk.vtkPolyDataMapper()
try:
circle_mapper.SetInputData(circlePolydata) # VTK Python >= 6
except:
circle_mapper.SetInput(circlePolydata) # VTK Python >= 5.8
circle_actor = vtk.vtkActor()
circle_actor.SetMapper(circle_mapper)
circle_actor.GetProperty().SetAmbient(0.2)
circle_actor.GetProperty().SetDiffuse(0.5)
circle_actor.GetProperty().SetSpecular(0.3)
circle_actor.GetProperty().SetColor(0,0.7,0.7)
circle_actor.GetProperty().SetLineWidth(3)
multiPolydata =vtk.vtkPolyData()
multiPolydata.SetPoints(multiPoints)
multiPolydata.SetLines(multiLines)
multi_mapper = vtk.vtkPolyDataMapper()
try:
multi_mapper.SetInputData(multiPolydata)
except:
multi_mapper.SetInput(multiPolydata)
multi_actor = vtk.vtkActor()
multi_actor.SetMapper(multi_mapper)
multi_actor.GetProperty().SetAmbient(0.2)
multi_actor.GetProperty().SetDiffuse(0.5)
multi_actor.GetProperty().SetSpecular(0.3)
multi_actor.GetProperty().SetColor(1,0,0.5)
multi_actor.GetProperty().SetLineWidth(3)
neutronPolydata =vtk.vtkPolyData()
neutronPolydata.SetPoints(neutronPoints)
neutronPolydata.SetLines(neutronLines)
neutron_mapper = vtk.vtkPolyDataMapper()
try:
neutron_mapper.SetInputData(neutronPolydata)
except:
neutron_mapper.SetInput(neutronPolydata)
neutron_actor = vtk.vtkActor()
neutron_actor.SetMapper(neutron_mapper)
neutron_actor.GetProperty().SetAmbient(0.2)
neutron_actor.GetProperty().SetDiffuse(0.5)
neutron_actor.GetProperty().SetSpecular(0.3)
neutron_actor.GetProperty().SetColor(1,1,1)
neutron_actor.GetProperty().SetLineWidth(2)
renderer = vtk.vtkRenderer()
renderer.AddActor(circle_actor)
renderer.AddActor(multi_actor)
renderer.AddActor(neutron_actor)
renderer.SetBackground(0, 0, 0)
renwin = vtk.vtkRenderWindow()
renwin.AddRenderer(renderer)
iren = vtk.vtkRenderWindowInteractor()
istyle = vtk.vtkInteractorStyleTrackballCamera()
iren.SetInteractorStyle(istyle)
iren.SetRenderWindow(renwin)
iren.Initialize()
renwin.Render()
iren.Start()
def parse_trace():
''' Parse McStas trace output from stdin and write results
to file objects csv_comps and csv_lines '''
mpl.rcParams['legend.fontsize'] = 10
fig = plt.figure(figsize=plt.figaspect(0.5) * 1.5)
ax = fig.gca(projection='3d')
ax.set_xlabel("z")
ax.set_ylabel("x")
ax.set_zlabel("y")
ax.set_aspect('equal')
# ax.autoscale_view(scalex=False, scaley=False, scalez=False)
color = 0
# map from component name to (position, rotation matrix)
comps = {}
# active (position, rotation matrix)
comp = (np.array([0, 0, 0]), np.array([1, 0, 0, 0, 1, 0, 0, 0,
1]).reshape(3, 3))
# previous neutron position
prev = None
skip = False
# we are drawing a neutron
active = False
xstate = []
ystate = []
zstate = []
while True:
# read line
line = get_line()
if not line:
break
# register components
if line.startswith(UC_COMP):
# grab info line
info = get_line()
assert info[:4] == 'POS:'
nums = [x.strip() for x in info[4:].split(',')]
# extract fields
name = line[len(UC_COMP):].strip(' "\n')
pos = np.array([float(x) for x in nums[:3]])
# read flat 3x3 rotation matrix
rot = np.array([float(x) for x in nums[3:3 + 9]]).reshape(3, 3)
comps[name] = (pos, rot)
# switch perspective
elif line.startswith(MC_COMP):
color += 1
comp = comps[line[len(MC_COMP) + 1:]]
elif line.startswith(MC_COMP_SHORT):
name = line[len(MC_COMP_SHORT) + 1:].strip('"')
comp = comps[name]
skip = True
# process multiline
elif line.startswith(MC_LINE):
points = parse_multiline(line[len(MC_LINE):].strip('()'))
start = points.pop(0)
(x, y, z) = rotate_points(points, comp)
ax.plot(z, x, y)
# process circle
elif line.startswith(MC_CIRCLE):
xyz = 'xyz'
items = line[len(MC_CIRCLE):].strip('()').split(',')
# plane
pla = [xyz.find(a) for a in items[0].strip("''")]
# center and radius
pos = [float(x) for x in items[1:4]]
rad = float(items[4])
(x, y, z) = draw_circle(pla, pos, rad, comp)
ax.plot(z, x, y)
# activate neutron when it enters
elif line.startswith(MC_ENTER):
prev = None
skip = True
active = True
color = 0
xstate = []
ystate = []
zstate = []
# deactivate neutron when it leaves
elif line.startswith(MC_LEAVE):
ax.plot(zstate, xstate, ystate)
active = False
prev = None
elif line.startswith(MC_ABSORB):
pass
# register state and scatter
elif line.startswith(MC_STATE) or line.startswith(MC_SCATTER):
if not active:
continue
if skip:
skip = False
continue
xyz = [float(x) for x in line[line.find(':') + 1:].split(',')[:3]]
xyz = rotate(xyz, comp)
if prev is not None:
xstate.append(xyz[0])
ystate.append(xyz[1])
zstate.append(xyz[2])
prev = xyz
xstate.append(prev[0])
ystate.append(prev[1])
zstate.append(prev[2])
# kick out legacy "junk"
elif line.startswith(MC_MAGNIFY) or line.startswith(
MC_START) or line.startswith(MC_END) or line.startswith(
MC_STOP):
continue
else:
print(line)
# A little bit of logic for controlling the aspect ratios/view
(xmin, xmax) = ax.get_xlim3d()
(ymin, ymax) = ax.get_ylim3d()
(zmin, zmax) = ax.get_zlim3d()
dx = xmax - xmin
dy = ymax - ymin
dz = zmax - zmin
dmax = max(dx, dy, dz)
# Check ranges and define axis box of max length cubed
if dmax > dx:
mean = (xmax + xmin) / 2
xmin = mean - dmax / 2
xmax = mean + dmax / 2
if dmax > dy:
mean = (ymax + ymin) / 2
ymin = mean - dmax / 2
ymax = mean + dmax / 2
if dmax > dz:
mean = (zmax + zmin) / 2
zmin = mean - dmax / 2
zmax = mean + dmax / 2
# Set new axis limits
ax.set_xlim3d(xmin, xmax)
ax.set_ylim3d(ymin, ymax)
ax.set_zlim3d(zmin, zmax)
plt.show()
