-
Notifications
You must be signed in to change notification settings - Fork 1
/
Copy pathProcess4D_radial.m
170 lines (144 loc) · 3.98 KB
/
Process4D_radial.m
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
%%
data_dir = 'data/';
wdir = '/Users/noahschnitzer/Documents/projects/hlab/data/4d/';
%wdir = '/Volumes/gcc73/20181115_TaS2_Heating/';
fname = '13_TaS2_300C_80keV_80kx_CL1p9m_10um_0_2mrad_spot6_shiftdiff_50x_50y_100z_432step_x128_y128.raw';
dim = 128;
e = empad( [wdir, fname], dim );
vis4D(e.im4D)
%%
e_2 = e.rebin4D(2);
vis4D(e_2.im4D)
%%
CBED_ave = e.pacbed;
imageBC(CBED_ave);
%% fanning
x0 = 26;
y0 = 39;
com_image = zeros(128,128,6);
max_image = zeros(128,128,6);
std_image = zeros(128,128,6);
wedges = -180:60:120;
for wedge_no = 1:6
wedge_no
masked_4d = e.applyWedgeDetector(x0,y0,5,15,wedges(wedge_no), wedges(wedge_no)+60);
scans_x = size(masked_4d.im4D,3);
scans_y = size(masked_4d.im4D,4);
%final_img_max = zeros(scans_x,scans_y);
%final_img_com = zeros(scans_x,scans_y);
for it = 1:scans_x
for jt = 1:scans_y
scan_im = squeeze(masked_4d.im4D(:,:,it,jt));
[max_1, ind_1] = max(scan_im);
[max_2,ind_2] = max(max_1);
xmax = ind_1(ind_2);
ymax = ind_2;
dx = xmax-x0;
dy = ymax-y0;
theta = atan2d(dy,dx);
max_image(it,jt,wedge_no) = theta;
%final_img_max(it, jt) = theta;
[ycom, xcom] = centerOfMass(scan_im);
%final_img_com(it,jt) = atan2d(ycom-y0, xcom-x0);
com_image(it,jt,wedge_no) = atan2d(ycom-y0, xcom-x0);
%std_image(it,jt,wedge_no) = std(scan_im(:));
%figure;
%imageBC(masked_4d.im4D(:,:,it,jt));
end
it
end
end
%%
figure;
for it = 1:6
subplot(2,3,it)
imagesc(com_image(:,:,it))
end
%%
figure;
for it = 1:6
subplot(2,3,it)
imagesc(max_image(:,:,it))
end
%% circle
x0 = 26;
y0 = 39;
std_image = zeros(128,128);
masked_4d = e.applyDetector(x0,y0,5,15);
scans_x = size(masked_4d.im4D,3);
scans_y = size(masked_4d.im4D,4);
%final_img_max = zeros(scans_x,scans_y);
%final_img_com = zeros(scans_x,scans_y);
for it = 1:scans_x
for jt = 1:scans_y
scan_im = squeeze(masked_4d.im4D(:,:,it,jt));
%[max_1, ind_1] = max(scan_im);
%[max_2,ind_2] = max(max_1);
%xmax = ind_1(ind_2);
%ymax = ind_2;
%dx = xmax-x0;
%dy = ymax-y0;
%theta = atan2d(dy,dx);
%max_image(it,jt,wedge_no) = theta;
%final_img_max(it, jt) = theta;
%[ycom, xcom] = centerOfMass(scan_im);
%final_img_com(it,jt) = atan2d(ycom-y0, xcom-x0);
%com_image(it,jt,wedge_no) = atan2d(ycom-y0, xcom-x0);
std_image(it,jt) = std(scan_im(:));
%figure;
%imageBC(masked_4d.im4D(:,:,it,jt));
end
it
end
%%
figure;
imagesc(std_image);
%%
x0 = 26;
y0 = 39;
%masked_4d = e.applyDetector(x0, y0, 5, 15);
%masked_4d = e.applyWedgeDetector(x0, y0, 5, 15,-150,-110);
masked_4d = e.applyWedgeDetector(x0, y0, 5, 15,-180,180);
%vis4D(masked_4d.im4D);
%%
%vis4D(masked_4d.im4D);
%kx, ky, scanx, scany
scans_x = size(masked_4d.im4D,3);
scans_y = size(masked_4d.im4D,4);
final_img_max = zeros(scans_x,scans_y);
final_img_com = zeros(scans_x,scans_y);
for it = 1:scans_x
for jt = 1:scans_y
[max_1, ind_1] = max(squeeze(masked_4d.im4D(:,:,it,jt)));
[max_2,ind_2] = max(max_1);
xmax = ind_1(ind_2);
ymax = ind_2;
dx = xmax-x0;
dy = ymax-y0;
theta = atan2d(dy,dx);
final_img_max(it, jt) = theta;
[ycom, xcom] = centerOfMass(squeeze(masked_4d.im4D(:,:,it,jt)));
final_img_com(it,jt) = atan2d(ycom-y0, xcom-x0);
%figure;
%imageBC(masked_4d.im4D(:,:,it,jt));
end
it
end
%%
imageBC(final_img_max);
%%
imageBC(final_img_com);
%%
[cm, csd] = circStat(final_img_max(:));
%%
function [cm, cstd]= circStat(phis)
rho = sum(exp(1i*phis))/length(phis);
cm = angle(rho);
cstd = sqrt(-2*log(abs(rho)));
end
function [xc, yc] = centerOfMass(im)
M = sum(im(:));
[xx,yy] = meshgrid(1:size(im,1), 1:size(im,2));
xc = sum(xx(:).*im(:))/M;
yc = sum(yy(:).*im(:))/M;
end