Skip to content
Snippets Groups Projects
Commit 2916e1f8 authored by Loïc Le Guyader's avatar Loïc Le Guyader
Browse files

Sample with other than normal incidence angle

parent ee8b0558
No related branches found
No related tags found
No related merge requests found
Hide whitespace changes
Inline Side-by-side
README.md
+ 3
− 1
View file @ 2916e1f8
......@@ -10,4 +10,6 @@ The so far implemented features are:
* calculates beam sizes and position for 2 energies
* calculates sample position (membrane size and pitch) as well as etched facets
* calculates position of the DSSC module 15 as well as filter bar position
* calculates focal length change due to the KBS
\ No newline at end of file
* calculates focal length change due to the KBS
* calculates beam focusing by KBS for the zone plate 0th order
* calculates beam and sample shape for sample at non-normal incidence angle
TZPGcalc.py
+ 190
− 83
View file @ 2916e1f8
......@@ -9,7 +9,7 @@
import numpy as np
import matplotlib.pyplot as plt
from matplotlib.patches import Rectangle
from matplotlib.patches import Rectangle, Polygon
from matplotlib.colors import hsv_to_rgb
import ipywidgets as widgets
......@@ -26,6 +26,7 @@ Z0 = 230*1e-3 # [m]
d = 3.3 - Z0 # distance between HFM and TZPG
f1 = 7.3 # HFM focus 2 m behind second interaction point
F = F*(d-f1)/(d-f1-F)
KBS_F = f1 - d # KBS focus distance from TZPG
# number of membrane to show
SampleN = 7
......@@ -63,50 +64,86 @@ class TZPGcalc():
c_gr = hsv_to_rgb([95/360, 60/100, 100/100])
c_gb = hsv_to_rgb([145/360, 60/100, 100/100])
self.samBeamsL = {'F0G0': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F0G1': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F0G-1': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F1G0': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_rr, alpha=0.7, lw=None)),
'F1G1': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_gr, alpha=0.7, lw=None)),
'F1G-1': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_gr, alpha=0.7, lw=None))
}
self.detBeamsL = {'F0G0': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F0G1': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F0G-1': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F1G0': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_rr, alpha=0.7, lw=None)),
'F1G1': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_gr, alpha=0.7, lw=None)),
'F1G-1': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_gr, alpha=0.7, lw=None))
}
self.samBeamsH = {'F0G0': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F0G1': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F0G-1': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F1G0': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_rb, alpha=0.7, lw=None)),
'F1G1': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_gb, alpha=0.7, lw=None)),
'F1G-1': self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_gb, alpha=0.7, lw=None))
}
self.detBeamsH = {'F0G0': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F0G1': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F0G-1': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor="black", alpha=0.4, lw=None)),
'F1G0': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_rb, alpha=0.7, lw=None)),
'F1G1': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_gb, alpha=0.7, lw=None)),
'F1G-1': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor=c_gb, alpha=0.7, lw=None))
}
self.detLines = {'module': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, fill=False, facecolor='k')),
'Vfilter': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor="blue", alpha=0.4)),
'Hfilter': self.ax_det.add_patch(Rectangle((0, 0), 1, 1, facecolor="blue", alpha=0.4)),
'diamond': self.ax_det.add_patch(Rectangle((-8, -8), 16, 16, facecolor="blue", alpha=0.4, angle=45))
self.samBeamsL = {
'F0G0': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F0G1': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F0G-1': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F1G0': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor=c_rr, alpha=0.7, lw=None)),
'F1G1': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor=c_gr, alpha=0.7, lw=None)),
'F1G-1': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor=c_gr, alpha=0.7, lw=None))
}
self.detBeamsL = {
'F0G0': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F0G1': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F0G-1': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F1G0': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor=c_rr, alpha=0.7, lw=None)),
'F1G1': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor=c_gr, alpha=0.7, lw=None)),
'F1G-1': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor=c_gr, alpha=0.7, lw=None))
}
self.samBeamsH = {
'F0G0': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F0G1': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F0G-1': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F1G0': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor=c_rb, alpha=0.7, lw=None)),
'F1G1': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor=c_gb, alpha=0.7, lw=None)),
'F1G-1': self.ax_sam.add_patch(
Polygon([(0, 0)], facecolor=c_gb, alpha=0.7, lw=None))
}
self.detBeamsH = {
'F0G0': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F0G1': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F0G-1': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor="black", alpha=0.4, lw=None)),
'F1G0': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor=c_rb, alpha=0.7, lw=None)),
'F1G1': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor=c_gb, alpha=0.7, lw=None)),
'F1G-1': self.ax_det.add_patch(
Polygon([(0, 0)], facecolor=c_gb, alpha=0.7, lw=None))
}
self.detLines = {
'module': self.ax_det.add_patch(
Rectangle((0, 0), 1, 1, fill=False, facecolor='k')),
'Vfilter': self.ax_det.add_patch(
Rectangle((0, 0), 1, 1, facecolor="blue", alpha=0.4)),
'Hfilter': self.ax_det.add_patch(
Rectangle((0, 0), 1, 1, facecolor="blue", alpha=0.4)),
'diamond': self.ax_det.add_patch(
Rectangle((-8, -8), 16, 16, facecolor="blue", alpha=0.4, angle=45))
}
# 5x5 membranes
self.sampleLines = {}
self.etchLines = {}
for k in range(SampleN*SampleN):
self.sampleLines[k] = self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, fill=False, facecolor='k'))
self.etchLines[k] = self.ax_sam.add_patch(Rectangle((0, 0), 1, 1, fill=False, facecolor='k', alpha=0.4, ls='--'))
self.sampleLines[k] = self.ax_sam.add_patch(
Rectangle((0, 0), 1, 1, fill=False, facecolor='k'))
self.etchLines[k] = self.ax_sam.add_patch(
Rectangle((0, 0), 1, 1, fill=False, facecolor='k', alpha=0.4, ls='--'))
def RectUpdate(self, rect, xLeft, yBottom, xRight, yTop):
""" Updates the position and size of the given Rectangle.
......@@ -126,13 +163,54 @@ class TZPGcalc():
rect.set_height(self.scale*yw)
rect.set_width(self.scale*xw)
def UpdateBeams(self, Beams, Z, conf):
def PolyUpdate(self, poly, xLeft, yBottom, xRight, yTop):
""" Updates the corner position of a Polygon.
poly: regular Polygon to update
xLeft: x position of the left corner
yBottom: y position of the bottom corner
xRight: x position of the right corner
yTop: y position of the top corner
"""
xy = self.scale*np.array([
[xLeft, yBottom],
[xLeft, yTop],
[xRight, yTop],
[xRight, yBottom]])
poly.set_xy(xy)
def LinePlaneIntersection(self, l1, l2, p0, n):
""" Calculate the intersection point in space between a line (beam)
passing through 2 points l1 and l2 and a (sample) plane passing by
p0 with normal n
l1: [x,y,z] point on line
l2: [x,y,z] point on line
p0: [x,y,z] point on plane
n: plane normal vector
"""
# plane parametrized as (p - p0).n = 0
# line parametrized as p = l1 + l12*d with d Real
l12 = l2 - l1
if np.dot(l12,n) == 0:
return [0,0,0] # line is either in the plane or outside the plane
else:
d = np.dot((p0 - l1), n)/np.dot(l12,n)
return l1 + l12*d
def UpdateBeams(self, Beams, Z, incidence, conf):
""" Update the position and size of the beams.
Beams: dictionary of f'F{f}G{g}' Rectangles for f = 0 and 1 zone plate order and
g = +1, 0 and -1 grating order
Beams: dictionary of f'F{f}G{g}' Polygon for f = 0 and 1 zone
plate order and g = +1, 0 and -1 grating order
Z: distance Z between the zone plate and the current imaging plane
conf: dictionnary of distance for calculation {'F', 'TZPGwH', 'TZPGwV', 'TZPGo', 'theta_grating'}
incidence: incidence angle of the imaging plane in rad
conf: dictionnary of distance for calculation {'F', 'TZPGwH',
'TZPGwV', 'TZPGo', 'theta_grating'}
"""
F = conf['F']
wH = conf['TZPGwH']
......@@ -140,36 +218,34 @@ class TZPGcalc():
o = conf['TZPGo']
offaxis = wV/2 + o
# side view X
Fx = F*np.arctan(conf['theta_grating'])
Xdg0 = np.abs(Z - F)/F*wH/2
Xdg1L = Z/F*(Fx - wH/2) + wH/2
Xdg1 = Z*np.tan(conf['theta_grating'])
Xdg1H = Z/F*(Fx + wH/2) - wH/2
# top view Y
YdfL = (o*(Z - F)/F + offaxis)
Ydf = ((o + wV/2)*(Z - F)/F + offaxis)
YdfH = ((o + wV)*(Z - F)/F + offaxis)
if Z < F: # before zone plate focus, low and high beam edges are swapped
Xdg1L, Xdg1H = (Xdg1H, Xdg1L)
YdfL, YdfH = (YdfH, YdfL)
self.RectUpdate(Beams['F0G0'],
-wH/2, -wV/2, wH/2, wV/2)
self.RectUpdate(Beams['F0G1'],
Xdg1-wH/2, -wV/2, Xdg1+wH/2, wV/2)
self.RectUpdate(Beams['F0G-1'],
-Xdg1-wH/2, -wV/2, -Xdg1+wH/2, wV/2)
self.RectUpdate(Beams['F1G0'],
-Xdg0, YdfL, Xdg0, YdfH)
self.RectUpdate(Beams['F1G1'],
Xdg1L, YdfL, Xdg1H, YdfH)
self.RectUpdate(Beams['F1G-1'],
-Xdg1H, YdfL, -Xdg1L, YdfH)
# imaging plane
n = np.array([np.sin(incidence), 0, np.cos(incidence)])
p0 = np.array([0,0,Z])
# zone plate 4 corner points
l1_list = [
np.array([wH/2,wV/2,0]),
np.array([wH/2,-wV/2,0]),
np.array([-wH/2,-wV/2,0]),
np.array([-wH/2,wV/2,0])
]
# 6 beam focus point
l2_list = {
'F0G0': np.array([0,0,KBS_F]),
'F0G1': np.array([KBS_F*np.arctan(conf['theta_grating']),0,KBS_F]),
'F0G-1': np.array([-KBS_F*np.arctan(conf['theta_grating']),0,KBS_F]),
'F1G0': np.array([0,offaxis,F]),
'F1G1': np.array([F*np.arctan(conf['theta_grating']),offaxis,F]),
'F1G-1': np.array([-F*np.arctan(conf['theta_grating']),offaxis,F])
}
for beam in l2_list.keys():
l2 = l2_list[beam]
corners = []
for l1 in l1_list:
corners.append(self.LinePlaneIntersection(l1, l2, p0, n)[:2])
Beams[beam].set_xy(self.scale*np.array(corners))
def DetectorUpdate(self, Xoff, Yoff):
""" Draw DSSC detector module with filter mask.
......@@ -199,7 +275,8 @@ class TZPGcalc():
# moving rotated rectangles is a pain in matplotlib
self.detLines['diamond'].set_xy((self.scale*Xoff, self.scale*(Yoff - diamondW/2*np.sqrt(2))))
def SampleUpdate(self, w, p, Xoff, Yoff, thickness=0.525):
def SampleUpdate(self, w, p, Xoff, Yoff, thickness=0.525,
incidence=0, etch_angle=54.74):
""" Draw the sample.
w: membrane width
......@@ -207,15 +284,26 @@ class TZPGcalc():
Xoff: sample x offset
Yoff: sample y offset
thickness: sample thickness used to calculate the etched facets
incidence: incidence angle in rad
etch_angle: etching angle from surface in rad
"""
# Si etching angle
wp = w +2*thickness/np.tan(np.deg2rad(54.74))
wp = w +2*thickness/np.tan(etch_angle)
# incidence angle squeezes sample and etch lines
# and induces an apparent shift off the etch lines
ci = np.cos(incidence)
thsi = thickness*np.sin(incidence)
j = 0
for k in range(-(SampleN-1)//2, (SampleN-1)//2+1):
for l in range(-(SampleN-1)//2, (SampleN-1)//2+1):
self.RectUpdate(self.sampleLines[j], k*p - w/2 + Xoff, l*p - w/2 - Yoff, k*p + w/2 + Xoff, l*p + w/2 - Yoff)
self.RectUpdate(self.etchLines[j], k*p - wp/2 + Xoff, l*p - wp/2 - Yoff, k*p + wp/2 + Xoff, l*p + wp/2 - Yoff)
self.RectUpdate(self.sampleLines[j],
ci*(k*p - w/2 + Xoff), l*p - w/2 - Yoff,
ci*(k*p + w/2 + Xoff), l*p + w/2 - Yoff)
self.RectUpdate(self.etchLines[j],
ci*(k*p - wp/2 + Xoff)+thsi, l*p - wp/2 - Yoff,
ci*(k*p + wp/2 + Xoff)+thsi, l*p + wp/2 - Yoff)
j+=1
def UpdateFig(self):
......@@ -232,6 +320,7 @@ class TZPGcalc():
theta_grating = self.grating_slider.value*1e-3 # [rad]
sampleZ = self.samz_slider.value*1e-3 # [m]
samIncidence = np.deg2rad(self.samIncidence_slider.value) # [rad]
detectorZ = self.det_slider.value*1e-3 # [m]
TZPGwH = self.TZPGwH_slider.value*1e-3 #[m]
TZPGwV = self.TZPGwV_slider.value*1e-3 #[m]
......@@ -253,10 +342,10 @@ class TZPGcalc():
'TZPGwH':TZPGwH, 'TZPGwV':TZPGwV, 'TZPGo':TZPGo}
# update the beams
self.UpdateBeams(self.samBeamsL, Z0 + sampleZ, confL)
self.UpdateBeams(self.detBeamsL, Z0 + detectorZ, confL)
self.UpdateBeams(self.samBeamsH, Z0 + sampleZ, confH)
self.UpdateBeams(self.detBeamsH, Z0 + detectorZ, confH)
self.UpdateBeams(self.samBeamsL, Z0 + sampleZ, samIncidence, confL)
self.UpdateBeams(self.detBeamsL, Z0 + detectorZ, 0, confL)
self.UpdateBeams(self.samBeamsH, Z0 + sampleZ, samIncidence, confH)
self.UpdateBeams(self.detBeamsH, Z0 + detectorZ, 0, confH)
# update the detector
detXoff = self.detX_slider.value*1e-3 #[m]
......@@ -269,7 +358,9 @@ class TZPGcalc():
samXoff = self.samX_slider.value*1e-3 #[m]
samYoff = self.samY_slider.value*1e-3 #[m]
samthickness = self.samthickness_slider.value*1e-6 #[m]
self.SampleUpdate(samw, samp, samXoff, samYoff, samthickness)
samEtchAngle = np.deg2rad(self.samEtchAngle_slider.value) #[rad]
self.SampleUpdate(samw, samp, samXoff, samYoff, samthickness,
samIncidence, samEtchAngle)
def initWidgets(self):
""" Creates the necessary interactive widget controls.
......@@ -379,12 +470,28 @@ class TZPGcalc():
step=1,
readout_format='.0f',
)
self.samIncidence_slider = widgets.FloatSlider(
value=0,
min=0,
max=90,
step=1,
readout_format='.0f',
)
self.samEtchAngle_slider = widgets.FloatSlider(
value=54.74,
min=0,
max=90,
step=0.01,
readout_format='.2f',
)
samTab = VBox(children=[HBox([widgets.Label(value='Sample Z (mm):'), self.samz_slider]),
HBox(children=[HBox([widgets.Label(value='Membrane width (mm):'), self.samw_slider]),
HBox([widgets.Label(value='Membrane pitch (mm):'), self.samp_slider])]),
HBox(children=[HBox([widgets.Label(value='Sample X-Offset (mm):'), self.samX_slider]),
HBox([widgets.Label(value='Sample Y-Offset (mm):'), self.samY_slider])]),
HBox([widgets.Label(value='Substrate thickness (um):'), self.samthickness_slider])
HBox([widgets.Label(value='Substrate thickness (um):'), self.samthickness_slider]),
HBox([HBox([widgets.Label(value='Normal incidence (deg):'), self.samIncidence_slider]),
HBox([widgets.Label(value='Etch angle from surface (deg):'), self.samEtchAngle_slider])])
])
#detector tab
......
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment

Legal Notice | Contacts