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
#![warn(missing_docs, trivial_casts, trivial_numeric_casts, unused_qualifications)]
use ndarray::{arr3, Array, Array3, ArrayBase, ArrayView3, Data, Dimension, Ix3, ShapeBuilder};
mod filters;
mod interpolation;
mod measurements;
mod morphology;
mod pad;
pub use filters::{
con_corr::{convolve, convolve1d, correlate, correlate1d, prewitt, sobel},
gaussian::{gaussian_filter, gaussian_filter1d},
median::median_filter,
min_max::{
maximum_filter, maximum_filter1d, maximum_filter1d_to, minimum_filter, minimum_filter1d,
minimum_filter1d_to,
},
BorderMode,
};
pub use interpolation::{spline_filter, spline_filter1d};
pub use measurements::{label, label_histogram, largest_connected_components, most_frequent_label};
pub use morphology::{binary_closing, binary_dilation, binary_erosion, binary_opening};
pub use pad::{pad, pad_to, PadMode};
pub type Mask = Array3<bool>;
#[derive(Clone, PartialEq)]
pub enum Kernel3d<'a> {
Star,
Ball,
Full,
GenericOwned(Array3<bool>),
GenericView(ArrayView3<'a, bool>),
}
impl<'a> std::fmt::Debug for Kernel3d<'a> {
fn fmt(&self, f: &mut std::fmt::Formatter<'_>) -> std::fmt::Result {
match self {
Kernel3d::Star => write!(f, "Star {:?}", self.dim()),
Kernel3d::Ball => write!(f, "Ball {:?}", self.dim()),
Kernel3d::Full => write!(f, "Full {:?}", self.dim()),
Kernel3d::GenericOwned(k) => write!(f, "Generic (owned) {:?}", k.dim()),
Kernel3d::GenericView(k) => write!(f, "Generic (view) {:?}", k.dim()),
}
}
}
impl<'a> Kernel3d<'a> {
pub fn dim(&self) -> (usize, usize, usize) {
match self {
Kernel3d::Star | Kernel3d::Ball | Kernel3d::Full => (3, 3, 3),
Kernel3d::GenericOwned(k) => k.dim(),
Kernel3d::GenericView(k) => k.dim(),
}
}
pub fn array(&self) -> Array3<bool> {
match self {
Kernel3d::Star => arr3(&[
[[false, false, false], [false, true, false], [false, false, false]],
[[false, true, false], [true, true, true], [false, true, false]],
[[false, false, false], [false, true, false], [false, false, false]],
]),
Kernel3d::Ball => arr3(&[
[[false, true, false], [true, true, true], [false, true, false]],
[[true, true, true], [true, true, true], [true, true, true]],
[[false, true, false], [true, true, true], [false, true, false]],
]),
Kernel3d::Full => Array3::from_elem((3, 3, 3), true),
Kernel3d::GenericOwned(k) => k.clone(),
Kernel3d::GenericView(k) => k.to_owned(),
}
}
pub fn radius(&self) -> (usize, usize, usize) {
match self {
Kernel3d::Star | Kernel3d::Ball | Kernel3d::Full => (1, 1, 1),
Kernel3d::GenericOwned(kernel) => {
let dim = kernel.dim();
((dim.0 - 1) / 2, (dim.1 - 1) / 2, (dim.2 - 1) / 2)
}
Kernel3d::GenericView(kernel) => {
let dim = kernel.dim();
((dim.0 - 1) / 2, (dim.1 - 1) / 2, (dim.2 - 1) / 2)
}
}
}
}
pub fn array_like<S, A, D, Sh>(arr: &ArrayBase<S, D>, shape: Sh, elem: A) -> Array<A, D>
where
S: Data<Elem = A>,
A: Clone,
D: Dimension,
Sh: ShapeBuilder<Dim = D>,
{
if arr.is_standard_layout() {
Array::from_elem(shape, elem)
} else {
Array::from_elem(shape.f(), elem)
}
}
pub fn dim_minus<S, A>(mask: &ArrayBase<S, Ix3>, n: usize) -> (usize, usize, usize)
where
S: Data<Elem = A>,
A: Clone,
{
let (width, height, depth) = mask.dim();
(width - n, height - n, depth - n)
}