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# -*- coding: utf-8 -*-
"""
!!! select one of the two functions to run at the very bottom !!!
"""
__author__ = "Konstantin Klementiev", "Roman Chernikov"
__date__ = "08 Mar 2016"
import os, sys; sys.path.append(os.path.join('..', '..', '..')) # analysis:ignore
import numpy as np
import matplotlib as mpl
import matplotlib.pyplot as plt
import xrt.backends.raycing as raycing
import xrt.backends.raycing.sources as rs
#import xrt.backends.raycing.apertures as ra
import xrt.backends.raycing.oes as roe
import xrt.backends.raycing.run as rr
import xrt.backends.raycing.materials as rm
import xrt.plotter as xrtp
import xrt.runner as xrtr
import xrt.backends.raycing.screens as rsc
#mGold = rm.Material('Au', rho=19.3)
mGlass = rm.Material(('Si', 'O'), quantities=(1, 2), rho=2.2)
class BentCapillary(roe.OE):
def __init__(self, *args, **kwargs):
self.rSample = kwargs.pop('rSample')
self.entranceAlpha = kwargs.pop('entranceAlpha')
self.f = kwargs.pop('f')
self.r0in = kwargs.pop('rIn')
self.r0out = kwargs.pop('rOut')
roe.OE.__init__(self, *args, **kwargs)
s0 = self.f - self.rSample * np.cos(self.entranceAlpha)
self.a0 = -np.tan(self.entranceAlpha) / 2 / s0
self.b0 = self.rSample * np.sin(self.entranceAlpha) - self.a0 * s0**2
self.s0 = s0
self.ar = (self.r0out-self.r0in) / s0**2
self.br = self.r0in
self.isParametric = True
def local_x0(self, s): # axis of capillary, x(s)
return self.a0 * s**2 + self.b0
def local_x0Prime(self, s):
return 2 * self.a0 * s
def local_r0(self, s): # radius of capillary (s)
return self.ar * (s-self.s0)**2 + self.br
def local_r0Prime(self, s):
return self.ar * 2 * (s-self.s0)
def local_r(self, s, phi):
den = np.cos(np.arctan(self.local_x0Prime(s)))**2
return self.local_r0(s) / (np.cos(phi)**2/den + np.sin(phi)**2)
def local_n(self, s, phi):
a = -np.sin(phi)
b = -np.sin(phi)*self.local_x0Prime(s) - self.local_r0Prime(s)
c = -np.cos(phi)
norm = np.sqrt(a**2 + b**2 + c**2)
return a/norm, b/norm, c/norm
def xyz_to_param(self, x, y, z):
""" *s*, *r*, *phi* are cynindrc-like coordinates of the capillary.
*s* is along y in inverse direction, started at the exit,
*r* is measured from the capillary axis x0(s)
*phi* is the polar angle measured from the z (vertical) direction."""
s = self.f - y
phi = np.arctan2(x - self.local_x0(s), z)
r = np.sqrt((x-self.local_x0(s))**2 + z**2)
return s, phi, r
def param_to_xyz(self, s, phi, r):
x = self.local_x0(s) + r*np.sin(phi)
y = self.f - s
z = r * np.cos(phi)
return x, y, z
E0 = 9000.
rSample = 100.
f = 500.
r0 = 0.1
wall = 0.02
layers = 12 # number of hexagonal layers
nRefl = 12
nReflDisp = 12
xzPrimeMax = 3.
def build_beamline(nrays=1000):
beamLine = raycing.BeamLine(height=0)
rs.GeometricSource(
beamLine, 'GeometricSource', (0, 0, 0), nrays=nrays,
dx=0., dz=0., distxprime='annulus',
distE='lines', energies=(E0,), polarization='horizontal')
beamLine.fsm1 = rsc.Screen(beamLine, 'DiamondFSM1', (0, rSample, 0))
beamLine.capillaries = []
beamLine.firstInLayer = []
beamLine.xzMax = 0
for n in range(layers):
if n > 0:
ms = range(n)
i6 = range(6)
else:
ms = 0,
i6 = 0,
beamLine.firstInLayer.append(len(beamLine.capillaries))
for i in i6:
for m in ms:
x = 2 * (r0+wall) * (n**2 + m**2 - n*m)**0.5
alpha = np.arcsin(x / rSample)
roll1 = -np.arctan2(np.sqrt(3)*m, 2*n - m)
roll = roll1 + i*np.pi/3.
capillary = BentCapillary(
beamLine, 'BentCapillary', [0, 0, 0], roll=roll,
material=mGlass, limPhysY=[rSample*np.cos(alpha), f],
f=f, rSample=rSample, entranceAlpha=alpha, rIn=r0, rOut=r0)
beamLine.capillaries.append(capillary)
if beamLine.xzMax < capillary.b0:
beamLine.xzMax = capillary.b0
print('max divergence =', alpha)
beamLine.xzMax += 2 * r0
print(len(beamLine.capillaries))
beamLine.sources[0].dxprime = 0, np.arcsin((2*n+1) * (r0+wall) / rSample)
# beamLine.sources[0].dxprime = (np.arcsin((2*n-3) * (r0+wall) / rSample),
# np.arcsin((2*n+1) * (r0+wall) / rSample))
# beamLine.sources[0].dxprime = 0, np.arcsin(r0 / rSample)
beamLine.fsm2 = rsc.Screen(beamLine, 'DiamondFSM2', (0, f, 0))
return beamLine
def run_process(beamLine):
beamSource = beamLine.sources[0].shine()
# raycing.rotate_beam(
# beamSource, yaw=-beamLine.capillaries[0].entranceAlpha)
beamFSM1 = beamLine.fsm1.expose(beamSource)
outDict = {'beamSource': beamSource, 'beamFSM1': beamFSM1}
beamCapillaryGlobalTotal = None
for i, capillary in enumerate(beamLine.capillaries):
beamCapillaryGlobal, beamCapillaryLocalN =\
capillary.multiple_reflect(beamSource, maxReflections=nRefl)
beamCapillaryLocalN.phi /= np.pi
if beamCapillaryGlobalTotal is None:
beamCapillaryGlobalTotal = beamCapillaryGlobal
else:
good = ((beamCapillaryGlobal.state == 1) |
(beamCapillaryGlobal.state == 3))
rs.copy_beam(beamCapillaryGlobalTotal, beamCapillaryGlobal,
good, includeState=True)
outDict['beamCapillaryLocalN{0:02d}'.format(i)] = beamCapillaryLocalN
outDict['beamCapillaryGlobalTotal'] = beamCapillaryGlobalTotal
beamFSM2 = beamLine.fsm2.expose(beamCapillaryGlobalTotal)
outDict['beamFSM2'] = beamFSM2
return outDict
rr.run_process = run_process
def plot2D():
beamLine = build_beamline()
fig1 = plt.figure(1, figsize=(8, 6))
# ax1 = plt.subplot(111, aspect='equal', label='1')
ax1 = plt.subplot(111, aspect=50, label='1')
ax1.set_title('Cross-section of polycapillary at $z$=0')
ax1.set_xlabel(r'$y$ (mm)', fontsize=14)
ax1.set_ylabel(r'$x$ (mm)', fontsize=14)
seq = [2, 5, 12, 5]
for i in beamLine.firstInLayer:
capillary = beamLine.capillaries[i]
s = np.linspace(0, capillary.s0, 200)
x = capillary.local_x0(s)
r = capillary.local_r0(s)
ax1.plot([0, f-s[-1]], [0, x[-1]], 'k-', lw=0.5)
line = ax1.plot(f-s, x, 'k-.', lw=0.5)
line[0].set_dashes(seq)
ax1.plot(f-s, x-r, 'r-', lw=2)
ax1.plot(f-s, x+r, 'r-', lw=2)
ax1.set_xlim(0, f)
ax1.set_ylim(-2*capillary.r0in, capillary.local_x0(0) + 2*capillary.r0out)
fig1.savefig('PolycapillaryZ0crosssection.png')
plt.show()
def define_plots(beamLine):
fwhmFormatStr3 = '%.3f'
plots = []
# PlotClass = xrtp.XYCPlotWithNumerOfReflections
PlotClass = xrtp.XYCPlot
for ibins, bins in enumerate([128, 256]):
plot = xrtp.XYCPlot(
'beamFSM1', (1, 3, -1),
xaxis=xrtp.XYCAxis(r'$x$', 'mm', bins=bins, ppb=2),
yaxis=xrtp.XYCAxis(r'$z$', 'mm', bins=bins, ppb=2),
caxis='category', beamState='beamFSM2', title='FSM1_Cat')
plot.baseName = 'NCapillaries-a-FSM1Cat{0}'.format(ibins)
plots.append(plot)
# for i in beamLine.firstInLayer:
capillariesToShow = 0, (layers-1)//2, layers-1
# print(capillariesToShow)
for i in capillariesToShow:
beamLocal = 'beamCapillaryLocalN{0:02d}'.format(i)
plot = PlotClass(
beamLocal, (1,), aspect='auto',
xaxis=xrtp.XYCAxis(r'$\phi$', 'rad', bins=bins, ppb=2),
yaxis=xrtp.XYCAxis(r'$s$', 'mm', bins=bins, ppb=2),
caxis=xrtp.XYCAxis('number of reflections', '',
bins=nReflDisp+1, ppb=16,
data=raycing.get_reflection_number),
ePos=1, title='N (s, phi)')
plot.xaxis.fwhmFormatStr = '%.2f' + r'$ \pi$'
plot.xaxis.limits = [-1, 1] # limits are in units of pi!
plot.yaxis.limits = [0, f]
plot.caxis.fwhmFormatStr = None
plot.caxis.limits = [-0.5, nReflDisp+0.5]
formatter = mpl.ticker.FormatStrFormatter('%g' + r'$ \pi$')
plot.ax2dHist.xaxis.set_major_formatter(formatter)
plot.baseName = 'NCapillaries-b-Local{0}N{1}'.format(i, ibins)
plots.append(plot)
plot = xrtp.XYCPlot(
beamLocal, (1,), aspect='auto',
xaxis=xrtp.XYCAxis(r'$\phi$', 'rad', bins=bins, ppb=2),
yaxis=xrtp.XYCAxis(r'$s$', 'mm', bins=bins, ppb=2),
caxis=xrtp.XYCAxis(r'incidence angle $\theta$', 'mrad'),
title='theta (s, phi)')
plot.xaxis.fwhmFormatStr = '%.2f' + r'$ \pi$'
plot.xaxis.limits = [-1, 1] # limits are in units of pi!
plot.yaxis.limits = [0, f]
plot.caxis.fwhmFormatStr = None
plot.caxis.limits = [0, xzPrimeMax*0.5]
formatter = mpl.ticker.FormatStrFormatter('%g' + r'$ \pi$')
plot.ax2dHist.xaxis.set_major_formatter(formatter)
plot.baseName = 'NCapillaries-c-Local{0}Theta{1}'.format(i, ibins)
plots.append(plot)
plot = PlotClass(
'beamFSM2', (1, 3),
xaxis=xrtp.XYCAxis(r'$x$', 'mm', bins=bins, ppb=2),
yaxis=xrtp.XYCAxis(r'$z$', 'mm', bins=bins, ppb=2),
caxis='category', title='FSM2_xzCat')
plot.xaxis.fwhmFormatStr = fwhmFormatStr3
plot.yaxis.fwhmFormatStr = fwhmFormatStr3
plot.xaxis.limits = [-beamLine.xzMax, beamLine.xzMax]
plot.yaxis.limits = [-beamLine.xzMax, beamLine.xzMax]
# plot.fluxFormatStr = '%.2e'
plot.baseName = 'NCapillaries-d-FSM2-xzCat{0}'.format(ibins)
plots.append(plot)
plot = PlotClass(
'beamFSM2', (1, 3),
xaxis=xrtp.XYCAxis(r'$x$', 'mm', bins=bins, ppb=2),
yaxis=xrtp.XYCAxis(r'$z$', 'mm', bins=bins, ppb=2),
caxis=xrtp.XYCAxis('number of reflections', '', bins=nReflDisp+1,
ppb=16, data=raycing.get_reflection_number),
title='FSM2_xzN')
plot.xaxis.fwhmFormatStr = fwhmFormatStr3
plot.yaxis.fwhmFormatStr = fwhmFormatStr3
plot.xaxis.limits = [-beamLine.xzMax, beamLine.xzMax]
plot.yaxis.limits = [-beamLine.xzMax, beamLine.xzMax]
plot.caxis.fwhmFormatStr = None
plot.caxis.limits = [-0.5, nReflDisp+0.5]
# plot.fluxFormatStr = '%.2e'
plot.baseName = 'NCapillaries-e-FSM2-xzN{0}'.format(ibins)
plots.append(plot)
plot = PlotClass(
'beamFSM2', (1, 3), aspect='auto',
xaxis=xrtp.XYCAxis(r'$x$', 'mm', bins=bins, ppb=2),
yaxis=xrtp.XYCAxis(r"$x'$", 'mrad', bins=bins, ppb=2),
caxis=xrtp.XYCAxis('number of reflections', '', bins=nReflDisp+1,
ppb=16, data=raycing.get_reflection_number),
title='FSM2_xxPrimeN')
plot.xaxis.fwhmFormatStr = fwhmFormatStr3
plot.yaxis.fwhmFormatStr = fwhmFormatStr3
plot.xaxis.limits = [-beamLine.xzMax, beamLine.xzMax]
plot.yaxis.limits = [-xzPrimeMax, xzPrimeMax]
plot.caxis.fwhmFormatStr = None
plot.caxis.limits = [-0.5, nReflDisp+0.5]
# plot.fluxFormatStr = '%.2e'
plot.baseName = 'NCapillaries-f-FSM2-xPhaseSpaceN{0}'.format(ibins)
plots.append(plot)
plot = PlotClass(
'beamCapillaryGlobalTotal', (1, 3), aspect='auto',
xaxis=xrtp.XYCAxis(r'$y$', 'mm', bins=bins, ppb=2),
yaxis=xrtp.XYCAxis(r"$x$", 'mm', bins=bins, ppb=2),
caxis=xrtp.XYCAxis(r"$x'$", 'mrad', bins=bins, ppb=2),
title='beamCapillaryGlobalTotal_yx')
plot.xaxis.fwhmFormatStr = fwhmFormatStr3
plot.yaxis.fwhmFormatStr = fwhmFormatStr3
plot.yaxis.limits = 'symmetric'
plot.caxis.fwhmFormatStr = None
plot.caxis.limits = [-xzPrimeMax, xzPrimeMax]
# plot.fluxFormatStr = '%.2e'
plot.baseName = 'NCapillaries-g-CapillaryOut-depthX{0}'.format(ibins)
plots.append(plot)
plot = PlotClass(
'beamCapillaryGlobalTotal', (1, 3), aspect='auto',
xaxis=xrtp.XYCAxis(r'$y$', 'mm', bins=bins, ppb=2),
yaxis=xrtp.XYCAxis(r"$z$", 'mm', bins=bins, ppb=2),
caxis=xrtp.XYCAxis(r"$z'$", 'mrad', bins=bins, ppb=2),
title='beamCapillaryGlobalTotal_yz')
plot.xaxis.fwhmFormatStr = fwhmFormatStr3
plot.yaxis.fwhmFormatStr = fwhmFormatStr3
plot.yaxis.limits = 'symmetric'
plot.caxis.fwhmFormatStr = None
plot.caxis.limits = [-xzPrimeMax, xzPrimeMax]
# plot.fluxFormatStr = '%.2e'
plot.baseName = 'NCapillaries-h-CapillaryOut-depthZ{0}'.format(ibins)
plots.append(plot)
for plot in plots:
plot.invertColorMap = True
plot.negative = True
plot.saveName = plot.baseName + '.png'
# plot.persistentName = plot.baseName + '.pickle'
return plots
def main():
beamLine = build_beamline()
plots = define_plots(beamLine)
xrtr.run_ray_tracing(plots, repeats=1000*16, beamLine=beamLine,
processes='half')
#this is necessary to use multiprocessing in Windows, otherwise the new Python
#contexts cannot be initialized:
if __name__ == '__main__':
main()
# plot2D()
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