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'''
Classes for representing a mcstas instruments and particle trace rays,
and classes used for organizing component drawing calls.
'''
import numpy as np
import math
class InstrumentSpecific(object):
''' represents a mcstas instrument with params choice '''
def __init__(self, name, params, params_defaults):
self.name = name
self.abspath = ''
self.params = params
self.params_defaults = params_defaults
self.params_values = []
self.components = []
self.rays = []
self.cmd = None
self.mantids = None
def set_cmd(self, cmd):
self.cmd = cmd
def get_boundingbox(self, first=None, last=None):
components = self.components
cnames = map(lambda c: c.name, self.components)
if first in cnames and last in cnames:
i_first = cnames.index(first)
i_last = cnames.index(last)
components = filter(lambda c: self.components.index(c) > i_first and self.components.index(c) < i_last, self.components)
elif first in cnames:
i_first = cnames.index(first)
components = filter(lambda c: self.components.index(c) > i_first, self.components)
elif last in cnames:
i_last = cnames.index(last)
components = filter(lambda c: self.components.index(c) < i_last, self.components)
# run the bounding box calculation
oldbox = None
for c in components:
box = c.get_tranformed_bb()
if oldbox:
box = box.add(oldbox)
oldbox = box
return box
def jsonize(self):
''' returns this object in jsonized form '''
instr = {}
# properties
instr['name'] = self.name
instr['abspath'] = self.abspath
instr['params'] = self.params
instr['params_defaults'] = self.params_defaults
instr['params_values'] = self.params_values
instr['cmd'] = self.cmd
# "bounding" box - only present for the sake of pyqtgraph --tof mode
instr['boundingbox'] = self.get_boundingbox().jsonize()
# components
lst = []
for c in self.components:
lst.append(c.jsonize())
instr['components'] = lst
# rays
lst = []
for r in self.rays:
lst.append(r.jsonize())
instr['rays'] = lst
return instr
class Component(object):
''' represents a mcstas component in some context '''
def __init__(self, name, pos, rot):
self.name = name
self.pos = pos
self.rot = rot
self.transform = Transform(rot, pos)
self.m4 = [rot.a11, rot.a12, rot.a13, pos.x, rot.a21, rot.a22, rot.a23, pos.y, rot.a31, rot.a32, rot.a33, pos.z, 0, 0, 0, 1]
self.drawcalls = []
# "bounding" box - only present for the sake of pyqtgraph --tof mode
def get_bounding_box(self):
''' calculate and return bounding box in naiive/local coordinates '''
box = BoundingBox()
for d in self.drawcalls:
box = d.get_boundingbox().add(box)
return box
# "bounding" box - only present for the sake of pyqtgraph --tof mode
def get_tranformed_bb(self):
''' calculate and return bounding box in transformed coordinates '''
box = BoundingBox()
for d in self.drawcalls:
box = d.get_boundingbox(self.transform).add(box)
return box
def jsonize(self):
''' returns a jsonized version of this object '''
component = {}
# properties
component['name'] = self.name
component['m4'] = self.m4
# drawcalls
lst = []
for d in self.drawcalls:
lst.append(d.jsonize())
component['drawcalls'] = lst
return component
def __str__(self):
return self.name
# "bounding" box - only present for the sake of pyqtgraph --tof mode
class BoundingBox(object):
''' bounding box '''
def __init__(self, x1=None, x2=None, y1=None, y2=None, z1=None, z2=None):
''' properly initialize the bounding box by infinity/ minus infinity '''
inf = float("inf")
ninf = - inf
self.x1 = x1 if x1 != None else inf
self.x2 = x2 if x2 != None else ninf
self.y1 = y1 if y1 != None else inf
self.y2 = y2 if y2 != None else ninf
self.z1 = z1 if z1 != None else inf
self.z2 = z2 if z2 != None else ninf
self.m4 = [1, 0, 0, 0, 0, 1, 0, 0, 0, 0, 1, 0, 0, 0, 0, 1]
def add(self, box):
''' add and return a combined bounding box '''
x1 = min(self.x1, box.x1)
x2 = max(self.x2, box.x2)
y1 = min(self.y1, box.y1)
y2 = max(self.y2, box.y2)
z1 = min(self.z1, box.z1)
z2 = max(self.z2, box.z2)
return BoundingBox(x1, x2, y1, y2, z1, z2)
def _get_drawcalls(self):
''' private method used to describe the bounding box in terms of mcdisplay drawcalls '''
x1 = self.x1
x2 = self.x2
y1 = self.y1
y2 = self.y2
z1 = self.z1
z2 = self.z2
# the rectangle front and back sides
d1 = DrawMultiline(args=[x1, y1, z1, x1, y2, z1, x2, y2, z1, x2, y1, z1, x1, y1, z1])
d2 = DrawMultiline(args=[x1, y1, z2, x1, y2, z2, x2, y2, z2, x2, y1, z2, x1, y1, z2])
# the four lines connecting
d3 = DrawLine(args=[x1, y1, z1, x1, y1, z2])
d4 = DrawLine(args=[x2, y1, z1, x2, y1, z2])
d5 = DrawLine(args=[x1, y2, z1, x1, y2, z2])
d6 = DrawLine(args=[x2, y2, z1, x2, y2, z2])
return [d1, d2, d3, d4, d5, d6]
def jsonize(self):
''' returns a jsonized version of this object '''
box = {}
box['xmin'] = self.x1
box['xmax'] = self.x2
box['ymin'] = self.y1
box['ymax'] = self.y2
box['zmin'] = self.z1
box['zmax'] = self.z2
# drawcalls
lst = []
drawcalls = self._get_drawcalls()
for d in drawcalls:
lst.append(d.jsonize())
box['drawcalls'] = lst
return box
def __str__(self):
return '%s, %s, %s, %s, %s, %s' % (self.x1, self.x2, self.y1, self.y2, self.z1, self.z2)
class RayBundle(object):
''' represents a bundle of particles '''
def __init__(self, rays):
self.rays = rays
def jsonize(self):
''' returns a jsonized version of this object '''
bundle = {}
# rays
lst = []
for r in self.rays:
lst.append(r.jsonize())
bundle['rays'] = lst
# number of rays
bundle['numrays'] = len(lst)
# min and max velocity
initial_speed = self.rays[0].get_speed() if len(self.rays) > 0 else 0
vmin = initial_speed
vmax = initial_speed
for r in self.rays:
speed = r.get_speed()
vmin = min(vmin, speed)
vmax = max(vmax, speed)
bundle['vmin'] = vmin
bundle['vmax'] = vmax
return bundle
class ParticleStory(object):
''' represents a whole particle ray from start to finish '''
def __init__(self):
self.groups = []
self.speed = None
def add_group(self, group):
self.groups.append(group)
def get_speed(self):
''' on-demand speed of this particle ray, which is incorrectly assumed to be constant '''
if not self.speed:
args = self.groups[len(self.groups)-1].events[0].args
self.speed = np.sqrt(args[3]*args[3] + args[4]*args[4] + args[5]*args[5])
return self.speed
def jsonize(self):
''' returns a jsonized version of this object '''
story = {}
# component-coordinate event groups
lst = []
for g in self.groups:
lst.append(g.jsonize())
story['groups'] = lst
# speed
story['speed'] = self.get_speed()
return story
class ParticleCompGroup(object):
''' represents particle events / states within the context of a specific component '''
def __init__(self, compname, transform=None):
self.compname = compname
self.events = []
self.transform = transform
def add_event(self, event):
self.events.append(event)
def get_transformed_pos_vel_t_lst(self):
if self.transform:
return [(self.transform.apply(e.get_position()), self.transform.rotate(e.get_velocity()), e.get_time()) for e in self.events]
else:
raise Exception("ParticleCompGroup: Member 'transform' not set.")
def jsonize(self):
''' returns a jsonized version of this object '''
group = {}
# properties
group['compname'] = self.compname
# lists
lst = []
for e in self.events:
lst.append(e.jsonize())
group['events'] = lst
return group
class ParticleState(object):
''' represents a single particle (ray) event, a semiclassical state, used for ray interpolation inferrence '''
def __init__(self, args, verbose=False):
''' x, y, z, vx, vy, vz, t, sx, sy, sz, intensity '''
self.args = floatify(args)
self.args_str = str(args[0])
if len(args) > 0:
self.args_str = str(args[0])
for i in range(len(args)-1):
self.args_str = self.args_str + ', ' + str(args[i+1])
if verbose:
self.position = Vector3d(float(args[0]), float(args[1]), float(args[2]))
self.velocity = Vector3d(float(args[3]), float(args[4]), float(args[5]))
self.time = float(args[6])
self.spin = Vector3d(float(args[7]), float(args[8]), float(args[9]))
self.intensity = float(args[10])
else:
self.time = None
self.position = None
self.velocity = None
def get_time(self):
''' returns time even if not initialized as verbose '''
if not self.time:
self.time = float(self.args[6])
return self.time
def get_position(self):
''' returns position even if not initialized as verbose '''
if not self.position:
self.position = Vector3d(float(self.args[0]), float(self.args[1]), float(self.args[2]))
return self.position
def get_velocity(self):
''' returns position even if not initialized as verbose '''
if not self.velocity:
self.velocity = Vector3d(float(self.args[3]), float(self.args[4]), float(self.args[5]))
return self.velocity
def jsonize(self):
''' returns a jsonized version of this object '''
state = {}
# properties
state['args'] = self.args
return state
# links mcstas draw api to the corresponding python class names '''
drawcommands = {
'magnify' : 'DrawMagnify',
'line' : 'DrawLine',
'dashed_line' : 'DrawDashedLine',
'multiline' : 'DrawMultiline',
'rectangle' : 'DrawRectangle',
'box' : 'DrawBox',
'circle' : 'DrawCircle',
'sphere' : 'DrawSphere',
'cone' : 'DrawCone',
'cylinder' : 'DrawCylinder',
'disc' : 'DrawDisc',
'annulus' : 'DrawAnnulus',
'new_circle' : 'DrawNewCircle',
'polygon' : 'DrawPolygon',
'polyhedron' : 'DrawPolyhedron',
}
# reduced set containing wholly implemented and non-trivial commands
reduced_drawcommands = {
'multiline' : 'DrawMultiline',
'circle' : 'DrawCircle',
'box' : 'DrawBox',
'sphere' : 'DrawSphere',
'cone' : 'DrawCone',
'cylinder' : 'DrawCylinder',
'disc' : 'DrawDisc',
'annulus' : 'DrawAnnulus',
'new_circle' : 'DrawNewCircle',
'polygon' : 'DrawPolygon',
'polyhedron' : 'DrawPolyhedron',
}
def drawclass_factory(commandname, args, reduced=False):
''' a pythonic object factory by command name '''
try:
# return None if we are dealing with a reduced set (mainly a way to get rid of Magnify)
if reduced and commandname not in reduced_drawcommands:
return None
klass = globals()[drawcommands[commandname]]
return klass(args)
except Exception as e:
raise Exception('DrawCommandFactory: error with commandname: %s, args: %s, error: %s' % (commandname, args, e.__str__()))
class DrawCommand(object):
''' superclass of all draw commands '''
def __init__(self, args=[]):
self.args = floatify(args)
self.args_str = ''
self.key = ''
self.boundingbox = None
if len(args) > 0:
self.args_str = str(args[0])
for i in range(len(args)-1):
self.args_str = self.args_str + ', ' + str(args[i+1])
# "bounding" box - only present for the sake of pyqtgraph --tof mode
def get_boundingbox(self, transform=None):
self.boundingbox = self._calc_boundingbox(self._get_points(), transform)
return self.boundingbox
def _get_points(self):
return
# "bounding" box - only present for the sake of pyqtgraph --tof mode
@classmethod
def _calc_boundingbox(self, points, transform):
''' override to implement alternative OR implement get_points '''
box = BoundingBox()
if not points:
return box
x_set = []
y_set = []
z_set = []
for p in points:
if transform:
p = transform.apply(p)
x_set.append(p.x)
y_set.append(p.y)
z_set.append(p.z)
box.x1 = min(x_set)
box.x2 = max(x_set)
box.y1 = min(y_set)
box.y2 = max(y_set)
box.z1 = min(z_set)
box.z2 = max(z_set)
return box
def jsonize(self):
''' returns a jsonzied version of this object '''
call = {}
# properties
call['key'] = self.key
#call['args_str'] = self.args_str
call['args'] = self.args
return call
class DrawMagnify(DrawCommand):
''' not implemented, a placeholder '''
def __init__(self, args):
super(DrawMagnify, self).__init__(args)
self.key = 'magnify'
class DrawLine(DrawCommand):
''' '''
point_1 = None
point_2 = None
points = None
# x_1, y_1, z_1, x_2, y_2, z_2
def __init__(self, args):
super(DrawLine, self).__init__(args)
self.key = 'line'
if type(args[0]) is Vector3d and type(args[1]) is Vector3d:
self.point_1 = args[0]
self.point_2 = args[1]
self.args = [args[0].x, args[0].y, args[0].z, args[1].x, args[1].y, args[1].z]
else:
self.point_1 = Vector3d(float(args[0]), float(args[1]), float(args[2]))
self.point_2 = Vector3d(float(args[3]), float(args[4]), float(args[5]))
self.args = args
self.points = [self.point_1, self.point_2]
class DrawDashedLine(DrawCommand):
''' '''
point_1 = None
point_2 = None
points = None
# x_1, y_1, z_1, x_2, y_2, z_2
def __init__(self, args):
super(DrawDashedLine, self).__init__(args)
self.key = 'dashed_line'
self.point_1 = Vector3d(float(args[0]), float(args[1]), float(args[2]))
self.point_2 = Vector3d(float(args[3]), float(args[4]), float(args[5]))
self.points = [self.point_1, self.point_2]
class DrawMultiline(DrawCommand):
''' '''
points = None
def __init__(self, args):
super(DrawMultiline, self).__init__(args)
self.key = 'multiline'
self.points = []
l = len(args)
try:
if not ((l % 3) == 0):
raise Exception("Tripplets condition not met.")
for i in range(l // 3):
x = float(args[i*3])
y = float(args[i*3+1])
z = float(args[i*3+2])
self.points.append(Vector3d(x, y, z))
except Exception as e:
raise Exception('DrawMultiline: %s' % e.__str__())
def _get_points(self):
return self.points
class DrawRectangle(DrawCommand):
''' '''
plane = ''
center = None
width = None
height = None
# plane, x, y, z, width, height
def __init__(self, args):
super(DrawRectangle, self).__init__(args)
self.key = 'rectangle'
self.plane = str(args[0])
self.center = Vector3d(float(args[1]), float(args[2]), float(args[3]))
self.width = float(args[4])
self.height = float(args[5])
class DrawBox(DrawCommand):
center = None
xwidth = None
yheight = None
zlength = None
thickness = None
def __init__(self, args):
super(DrawBox, self).__init__(args)
self.key = 'box'
self.center = Vector3d(float(args[0]), float(args[1]), float(args[2]))
self.xwidth = float(args[3])
self.yheight = float(args[4])
self.zlength = float(args[5])
self.thickness = float(args[6])
class DrawCircle(DrawCommand):
plane = ''
center = None
radius = None
def __init__(self, args):
super(DrawCircle, self).__init__(args)
self.key = 'circle'
self.plane = str(args[0])
self.center = Vector3d(float(args[1]), float(args[2]), float(args[3]))
self.radius = float(args[4])
# override default behavior to ensure quotes around the first arg, plane
idx = self.args_str.find(',')
self.args_str = '\"' + self.args_str[:idx] + '\"' + self.args_str[idx:]
def _get_points(self):
''' returns the corners of a flat square around the circle, transformed into the proper plane '''
rad = self.radius
cen = self.center
ne = Vector3d(rad, rad, 0)
nw = Vector3d(-rad, rad, 0)
sw = Vector3d(-rad, -rad, 0)
se = Vector3d(rad, -rad, 0)
square = [ne, nw, sw, se]
if self.plane == 'xy':
return map(lambda p: cen.add(p), square)
elif self.plane == 'xz':
return map(lambda p: cen.add(Vector3d(p.x, 0, p.y)), square)
elif self.plane == 'yz':
return map(lambda p: cen.add(Vector3d(0, p.x, p.y)), square)
else:
raise Exception('DrawCircle: invalid plane argument')
def get_points_on_circle(self, steps=60):
''' returns points on the circle, transformed into the proper plane '''
if self.plane in ['zy', 'yz']: (k1, k2) = (2,1)
elif self.plane in ['xy', 'yx']: (k1, k2) = (0,1)
elif self.plane in ['zx', 'xz']: (k1, k2) = (2,0)
else:
raise Exception('DrawCircle: invalid plane argument: %s' % self.plane)
rad = self.radius
center = self.center
circ2 = [ (rad*np.cos(theta), rad*np.sin(theta)) for theta in np.linspace(0, 2*np.pi, steps) ]
circ3 = []
for p2 in circ2:
p = Vector3d()
p[k1] = p2[0]
p[k2] = p2[1]
circ3.append(p)
return [center.add(c) for c in circ3]
class DrawNewCircle(DrawCommand):
center = None
radius = None
axis_vector = None
def __init__(self, args):
super(DrawNewCircle, self).__init__(args)
self.key = 'new_circle'
self.center = Vector3d(float(args[0]), float(args[1]), float(args[2]))
self.radius = float(args[3])
self.axis_vector = Vector3d(float(args[4]), float(args[5]), float(args[6]))
class DrawSphere(DrawCommand):
center = None
radius = None
def __init__(self, args):
super(DrawSphere, self).__init__(args)
self.key = 'sphere'
self.center = Vector3d(float(args[0]), float(args[1]), float(args[2]))
self.radius = float(args[3])
class DrawCone(DrawCommand):
center = None
radius = None
height = None
axis_vector = None
def __init__(self, args):
super(DrawCone, self).__init__(args)
self.key = 'cone'
self.center = Vector3d(float(args[0]), float(args[1]), float(args[2]))
self.radius = float(args[3])
self.height = float(args[4])
self.axis_vector = Vector3d(float(args[5]), float(args[6]), float(args[7]))
class DrawCylinder(DrawCommand):
center = None
radius = None
height = None
thickness = None
axis_vector = None
def __init__(self, args):
super(DrawCylinder, self).__init__(args)
self.key = 'cylinder'
self.center = Vector3d(float(args[0]), float(args[1]), float(args[2]))
self.radius = float(args[3])
self.height = float(args[4])
self.thickness = float(args[5])
self.axis_vector = Vector3d(float(args[6]), float(args[7]), float(args[8]))
class DrawDisc(DrawCommand):
center = None
radius = None
axis_vector = None
def __init__(self, args):
super(DrawDisc, self).__init__(args)
self.key = 'disc'
self.center = Vector3d(float(args[0]), float(args[1]), float(args[2]))
self.radius = float(args[3])
self.axis_vector = Vector3d(float(args[4]), float(args[5]), float(args[6]))
class DrawAnnulus(DrawCommand):
center = None
outer_radius = None
inner_radius = None
axis_vector = None
def __init__(self, args):
super(DrawAnnulus, self).__init__(args)
self.key = 'annulus'
self.center = Vector3d(float(args[0]), float(args[1]), float(args[2]))
self.outer_radius = float(args[3])
self.inner_radius = float(args[4])
self.axis_vector = Vector3d(float(args[5]), float(args[6]), float(args[7]))
class DrawPolyhedron(DrawCommand):
faces_vertices = None
def __init__(self, args):
super(DrawPolyhedron, self).__init__(args)
self.key = 'polyhedron'
self.faces_vertices = args[0]
class DrawPolygon(DrawCommand):
#TODO: awaiting C code for this
def __init__(self, args):
super(DrawPolygon, self).__init__(args)
self.key = 'polygon'
class Vector3d(object):
def __init__(self, x=0.0, y=0.0, z=0.0):
self.x = float(x)
self.y = float(y)
self.z = float(z)
def add(self, v):
''' just add another vector to this one and return the result (does not change this instance) '''
return Vector3d(x = self.x + v.x, y = self.y + v.y, z = self.z + v.z)
def subtract(self, v):
''' subtract a vector from this one and return the result (does not change this instance) '''
return Vector3d(x = self.x - v.x, y = self.y - v.y, z = self.z - v.z)
def scalarmult(self, s):
''' multiply this by a scalar and return the result (does not change this instance) '''
return Vector3d(x = self.x*s, y = self.y*s, z = self.z*s)
def norm(self):
''' returns the norm of this object '''
return np.sqrt(self.x*self.x + self.y*self.y + self.z*self.z)
def normalize(self):
''' returns the norm of this object '''
factor = 1 / self.norm()
return self.scalarmult(factor)
def to_lst(self):
return [self.x, self.y, self.z]
def to_args_str(self):
return '%s, %s, %s' % (str(self.x), str(self.y), str(self.z))
def __getitem__(self, idx):
''' support get by index '''
if idx == 0: return self.x
elif idx == 1: return self.y
elif idx == 2: return self.z
else: raise Exception('Vector3d: get index must be in (0, 1, 2)')
def __setitem__(self, idx, value):
''' support get by index '''
if idx == 0: self.x = value
elif idx == 1: self.y = value
elif idx == 2: self.z = value
else: raise Exception('Vector3d: assignment index must be in (0, 1, 2)')
class Matrix3(object):
''' a 3x3 matrix representation '''
def __init__(self, a11, a12, a13, a21, a22, a23, a31, a32, a33):
self.a11 = float(a11)
self.a12 = float(a12)
self.a13 = float(a13)
self.a21 = float(a21)
self.a22 = float(a22)
self.a23 = float(a23)
self.a31 = float(a31)
self.a32 = float(a32)
self.a33 = float(a33)
def mult(self, v):
''' multiply a matrix by a vector from the right '''
x = self.a11*v.x + self.a12*v.y + self.a13*v.z
y = self.a21*v.x + self.a22*v.y + self.a23*v.z
z = self.a31*v.x + self.a32*v.y + self.a33*v.z
return Vector3d(x, y, z)
class Transform(object):
''' a rudimentary matrix4 transform '''
def __init__(self, rot, pos):
self.a11 = rot.a11
self.a12 = rot.a12
self.a13 = rot.a13
self.a21 = rot.a21
self.a22 = rot.a22
self.a23 = rot.a23
self.a31 = rot.a31
self.a32 = rot.a32
self.a33 = rot.a33
self.a14 = pos.x
self.a24 = pos.y
self.a34 = pos.z
self.a41 = 0
self.a42 = 0
self.a43 = 0
self.a44 = 1
self.v = None
self.alpha = None
def apply(self, v3):
x = self.a11*v3.x + self.a12*v3.y + self.a13*v3.z + self.a14
y = self.a21*v3.x + self.a22*v3.y + self.a23*v3.z + self.a24
z = self.a31*v3.x + self.a32*v3.y + self.a33*v3.z + self.a34
return Vector3d(x, y, z)
def rotate(self, v3):
x = self.a11*v3.x + self.a12*v3.y + self.a13*v3.z
y = self.a21*v3.x + self.a22*v3.y + self.a23*v3.z
z = self.a31*v3.x + self.a32*v3.y + self.a33*v3.z
return Vector3d(x, y, z)
def get_rotvector_alpha(self, deg=False):
''' calculate one angle of rotation around an axis by general 3x3 rotation '''
self.alpha = math.acos((self.a11 + self.a22 + self.a33 - 1)/2)
if deg:
self.alpha = 180/math.pi * self.alpha
x = self.a32 - self.a23
y = self.a13 - self.a31
z = self.a21 - self.a12
v_abs = math.sqrt(x*x + y*y + z*z)
if not self.v:
self.v = Vector3d
# Protection for division by 0
if v_abs == 0:
v_abs=1;
self.v.x = x / v_abs
self.v.y = y / v_abs
self.v.z = z / v_abs
return self.v, self.alpha
def __str__(self):
return "%s %s %s %s\n%s %s %s %s\n%s %s %s %s\n%s %s %s %s" % (self.a11, self.a12, self.a13, self.a14, self.a21, self.a22, self.a23, self.a24, self.a31, self.a32, self.a33, self.a34, self.a41, self.a42, self.a43, self.a44)
class Matrix3Identity(Matrix3):
def __init__(self):
Matrix3.__init__(self,
1, 0, 0,
0, 1, 0,
0, 0, 1)
def floatify(org_lst):
''' returns a transformed list with entries converted to floats, if possible '''
new_lst = []
for a in org_lst:
try:
new_lst.append(float(a))
except:
new_lst.append(a)
return new_lst
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