|
1
|
|
|
import pytest |
|
2
|
|
|
import yaml |
|
3
|
|
|
|
|
4
|
|
|
from deepreg.config.v011 import ( |
|
5
|
|
|
parse_image_loss, |
|
6
|
|
|
parse_label_loss, |
|
7
|
|
|
parse_loss, |
|
8
|
|
|
parse_model, |
|
9
|
|
|
parse_optimizer, |
|
10
|
|
|
parse_reg_loss, |
|
11
|
|
|
parse_v011, |
|
12
|
|
|
) |
|
13
|
|
|
|
|
14
|
|
|
|
|
15
|
|
|
@pytest.mark.parametrize( |
|
16
|
|
|
("old_config_path", "latest_config_path"), |
|
17
|
|
|
[ |
|
18
|
|
|
( |
|
19
|
|
|
"config/test/grouped_mr_heart_v011.yaml", |
|
20
|
|
|
"demos/grouped_mr_heart/grouped_mr_heart.yaml", |
|
21
|
|
|
), |
|
22
|
|
|
( |
|
23
|
|
|
"demos/grouped_mr_heart/grouped_mr_heart.yaml", |
|
24
|
|
|
"demos/grouped_mr_heart/grouped_mr_heart.yaml", |
|
25
|
|
|
), |
|
26
|
|
|
], |
|
27
|
|
|
) |
|
28
|
|
|
def test_grouped_mr_heart(old_config_path: str, latest_config_path: str): |
|
29
|
|
|
with open(old_config_path) as file: |
|
30
|
|
|
old_config = yaml.load(file, Loader=yaml.FullLoader) |
|
31
|
|
|
with open(latest_config_path) as file: |
|
32
|
|
|
latest_config = yaml.load(file, Loader=yaml.FullLoader) |
|
33
|
|
|
updated_config = parse_v011(old_config=old_config) |
|
34
|
|
|
assert updated_config == latest_config |
|
35
|
|
|
|
|
36
|
|
|
|
|
37
|
|
|
class TestParseModel: |
|
38
|
|
|
config_v011 = { |
|
39
|
|
|
"model": { |
|
40
|
|
|
"method": "dvf", |
|
41
|
|
|
"backbone": "global", |
|
42
|
|
|
"global": {"num_channel_initial": 32, "extract_levels": [0, 1, 2]}, |
|
43
|
|
|
} |
|
44
|
|
|
} |
|
45
|
|
|
config_latest = { |
|
46
|
|
|
"method": "dvf", |
|
47
|
|
|
"backbone": {"name": "global", "num_channel_initial": 32, "depth": 2}, |
|
48
|
|
|
} |
|
49
|
|
|
|
|
50
|
|
|
@pytest.mark.parametrize( |
|
51
|
|
|
("model_config", "expected"), |
|
52
|
|
|
[ |
|
53
|
|
|
(config_v011, config_latest), |
|
54
|
|
|
(config_v011["model"], config_latest), |
|
55
|
|
|
(config_latest, config_latest), |
|
56
|
|
|
], |
|
57
|
|
|
) |
|
58
|
|
|
def test_parse(self, model_config: dict, expected: dict): |
|
59
|
|
|
got = parse_model(model_config=model_config) |
|
60
|
|
|
assert got == expected |
|
61
|
|
|
|
|
62
|
|
|
|
|
63
|
|
|
def test_parse_loss(): |
|
64
|
|
|
loss_config = { |
|
65
|
|
|
"dissimilarity": { |
|
66
|
|
|
"image": { |
|
67
|
|
|
"name": "lncc", |
|
68
|
|
|
"weight": 2.0, |
|
69
|
|
|
"lncc": { |
|
70
|
|
|
"kernel_size": 9, |
|
71
|
|
|
"kernel_type": "rectangular", |
|
72
|
|
|
}, |
|
73
|
|
|
}, |
|
74
|
|
|
} |
|
75
|
|
|
} |
|
76
|
|
|
expected = { |
|
77
|
|
|
"image": { |
|
78
|
|
|
"name": "lncc", |
|
79
|
|
|
"weight": 2.0, |
|
80
|
|
|
"kernel_size": 9, |
|
81
|
|
|
"kernel_type": "rectangular", |
|
82
|
|
|
}, |
|
83
|
|
|
} |
|
84
|
|
|
got = parse_loss(loss_config=loss_config) |
|
85
|
|
|
assert got == expected |
|
86
|
|
|
|
|
87
|
|
|
|
|
88
|
|
|
class TestParseImageLoss: |
|
89
|
|
|
def test_parse_outdated_loss(self): |
|
90
|
|
|
loss_config = { |
|
91
|
|
|
"image": { |
|
92
|
|
|
"name": "lncc", |
|
93
|
|
|
"weight": 2.0, |
|
94
|
|
|
"lncc": { |
|
95
|
|
|
"kernel_size": 9, |
|
96
|
|
|
"kernel_type": "rectangular", |
|
97
|
|
|
}, |
|
98
|
|
|
}, |
|
99
|
|
|
} |
|
100
|
|
|
expected = { |
|
101
|
|
|
"image": { |
|
102
|
|
|
"name": "lncc", |
|
103
|
|
|
"weight": 2.0, |
|
104
|
|
|
"kernel_size": 9, |
|
105
|
|
|
"kernel_type": "rectangular", |
|
106
|
|
|
}, |
|
107
|
|
|
} |
|
108
|
|
|
got = parse_image_loss(loss_config=loss_config) |
|
109
|
|
|
assert got == expected |
|
110
|
|
|
|
|
111
|
|
|
def test_parse_multiple_loss(self): |
|
112
|
|
|
loss_config = { |
|
113
|
|
|
"image": [ |
|
114
|
|
|
{ |
|
115
|
|
|
"name": "lncc", |
|
116
|
|
|
"weight": 0.5, |
|
117
|
|
|
"kernel_size": 9, |
|
118
|
|
|
"kernel_type": "rectangular", |
|
119
|
|
|
}, |
|
120
|
|
|
{ |
|
121
|
|
|
"name": "ssd", |
|
122
|
|
|
"weight": 0.5, |
|
123
|
|
|
}, |
|
124
|
|
|
], |
|
125
|
|
|
} |
|
126
|
|
|
|
|
127
|
|
|
got = parse_image_loss(loss_config=loss_config) |
|
128
|
|
|
assert got == loss_config |
|
129
|
|
|
|
|
130
|
|
|
|
|
131
|
|
|
class TestParseLabelLoss: |
|
132
|
|
|
@pytest.mark.parametrize( |
|
133
|
|
|
("name_loss", "expected_config"), |
|
134
|
|
|
[ |
|
135
|
|
|
( |
|
136
|
|
|
"multi_scale", |
|
137
|
|
|
{ |
|
138
|
|
|
"label": { |
|
139
|
|
|
"name": "ssd", |
|
140
|
|
|
"weight": 2.0, |
|
141
|
|
|
"scales": [0, 1], |
|
142
|
|
|
}, |
|
143
|
|
|
}, |
|
144
|
|
|
), |
|
145
|
|
|
( |
|
146
|
|
|
"single_scale", |
|
147
|
|
|
{ |
|
148
|
|
|
"label": { |
|
149
|
|
|
"name": "dice", |
|
150
|
|
|
"weight": 1.0, |
|
151
|
|
|
}, |
|
152
|
|
|
}, |
|
153
|
|
|
), |
|
154
|
|
|
], |
|
155
|
|
|
) |
|
156
|
|
|
def test_parse_outdated_loss(self, name_loss: str, expected_config: dict): |
|
157
|
|
|
outdated_config = { |
|
158
|
|
|
"label": { |
|
159
|
|
|
"name": name_loss, |
|
160
|
|
|
"single_scale": { |
|
161
|
|
|
"loss_type": "dice_generalized", |
|
162
|
|
|
}, |
|
163
|
|
|
"multi_scale": { |
|
164
|
|
|
"loss_type": "mean-squared", |
|
165
|
|
|
"loss_scales": [0, 1], |
|
166
|
|
|
}, |
|
167
|
|
|
}, |
|
168
|
|
|
} |
|
169
|
|
|
|
|
170
|
|
|
if name_loss == "multi_scale": |
|
171
|
|
|
outdated_config["label"]["weight"] = 2.0 # type: ignore |
|
172
|
|
|
|
|
173
|
|
|
got = parse_label_loss(loss_config=outdated_config) |
|
174
|
|
|
assert got == expected_config |
|
175
|
|
|
|
|
176
|
|
|
def test_parse_background_weight(self): |
|
177
|
|
|
outdated_config = { |
|
178
|
|
|
"label": { |
|
179
|
|
|
"name": "dice", |
|
180
|
|
|
"weight": 1.0, |
|
181
|
|
|
"neg_weight": 2.0, |
|
182
|
|
|
}, |
|
183
|
|
|
} |
|
184
|
|
|
expected_config = { |
|
185
|
|
|
"label": { |
|
186
|
|
|
"name": "dice", |
|
187
|
|
|
"weight": 1.0, |
|
188
|
|
|
"background_weight": 2.0, |
|
189
|
|
|
}, |
|
190
|
|
|
} |
|
191
|
|
|
got = parse_label_loss(loss_config=outdated_config) |
|
192
|
|
|
assert got == expected_config |
|
193
|
|
|
|
|
194
|
|
|
def test_parse_multiple_loss(self): |
|
195
|
|
|
loss_config = { |
|
196
|
|
|
"label": [ |
|
197
|
|
|
{ |
|
198
|
|
|
"name": "dice", |
|
199
|
|
|
"weight": 1.0, |
|
200
|
|
|
}, |
|
201
|
|
|
{ |
|
202
|
|
|
"name": "cross-entropy", |
|
203
|
|
|
"weight": 1.0, |
|
204
|
|
|
}, |
|
205
|
|
|
], |
|
206
|
|
|
} |
|
207
|
|
|
|
|
208
|
|
|
got = parse_label_loss(loss_config=loss_config) |
|
209
|
|
|
assert got == loss_config |
|
210
|
|
|
|
|
211
|
|
|
|
|
212
|
|
|
class TestParseRegularizationLoss: |
|
213
|
|
|
@pytest.mark.parametrize( |
|
214
|
|
|
("energy_type", "loss_name", "extra_args"), |
|
215
|
|
|
[ |
|
216
|
|
|
("bending", "bending", {}), |
|
217
|
|
|
("gradient-l2", "gradient", {"l1": False}), |
|
218
|
|
|
("gradient-l1", "gradient", {"l1": True}), |
|
219
|
|
|
], |
|
220
|
|
|
) |
|
221
|
|
|
def test_parse_outdated_loss( |
|
222
|
|
|
self, energy_type: str, loss_name: str, extra_args: dict |
|
223
|
|
|
): |
|
224
|
|
|
|
|
225
|
|
|
loss_config = { |
|
226
|
|
|
"regularization": { |
|
227
|
|
|
"energy_type": energy_type, |
|
228
|
|
|
"weight": 2.0, |
|
229
|
|
|
} |
|
230
|
|
|
} |
|
231
|
|
|
expected = { |
|
232
|
|
|
"regularization": { |
|
233
|
|
|
"name": loss_name, |
|
234
|
|
|
"weight": 2.0, |
|
235
|
|
|
**extra_args, |
|
236
|
|
|
}, |
|
237
|
|
|
} |
|
238
|
|
|
got = parse_reg_loss(loss_config=loss_config) |
|
239
|
|
|
assert got == expected |
|
240
|
|
|
|
|
241
|
|
|
def test_parse_multiple_reg_loss(self): |
|
242
|
|
|
loss_config = { |
|
243
|
|
|
"regularization": [ |
|
244
|
|
|
{ |
|
245
|
|
|
"name": "bending", |
|
246
|
|
|
"weight": 2.0, |
|
247
|
|
|
}, |
|
248
|
|
|
{ |
|
249
|
|
|
"name": "gradient", |
|
250
|
|
|
"weight": 2.0, |
|
251
|
|
|
"l1": True, |
|
252
|
|
|
}, |
|
253
|
|
|
], |
|
254
|
|
|
} |
|
255
|
|
|
got = parse_reg_loss(loss_config=loss_config) |
|
256
|
|
|
assert got == loss_config |
|
257
|
|
|
|
|
258
|
|
|
|
|
259
|
|
|
def test_parse_optimizer(): |
|
260
|
|
|
opt_config = { |
|
261
|
|
|
"name": "adam", |
|
262
|
|
|
"adam": { |
|
263
|
|
|
"learning_rate": 1.0e-4, |
|
264
|
|
|
}, |
|
265
|
|
|
"sgd": { |
|
266
|
|
|
"learning_rate": 1.0e-4, |
|
267
|
|
|
"momentum": 0.9, |
|
268
|
|
|
}, |
|
269
|
|
|
} |
|
270
|
|
|
expected = { |
|
271
|
|
|
"name": "Adam", |
|
272
|
|
|
"learning_rate": 1.0e-4, |
|
273
|
|
|
} |
|
274
|
|
|
got = parse_optimizer(opt_config=opt_config) |
|
275
|
|
|
assert got == expected |
|
276
|
|
|
|
DeepRegNet /
DeepReg
