test.unit.test_config_v011.TestParseLoss.test_parse() - Code Metrics - Inspection of "Merge pull request #749 from DeepRegNet/664-separa..." - DeepRegNet/DeepReg - Measure and Improve Code Quality continuously with Scrutinizer

Completed

Push — main ( d3edf2...e8f714 )

by Yunguan

created 2021-04-23 14:50 UTC

TestParseLoss.test_parse() A

↳ Parent: test.unit.test_config_v011

Complexity

Conditions

Size

Total Lines	10
Code Lines	8

Duplication

Lines	0
Ratio	0 %

Importance

Changes

Metric	Value
eloc	8
dl	0
loc	10
rs	10
c	0
b	0
f	0
cc	1
nop	3

from typing import Dict

import pytest
import yaml

from deepreg.config.v011 import (
    parse_data,
    parse_image_loss,
    parse_label_loss,
    parse_loss,
    parse_model,
    parse_optimizer,
    parse_reg_loss,
    parse_v011,
)


@pytest.mark.parametrize(
    ("old_config_path", "latest_config_path"),
    [
        (
            "config/test/grouped_mr_heart_v011.yaml",
            "demos/grouped_mr_heart/grouped_mr_heart.yaml",
        ),
        (
            "demos/grouped_mr_heart/grouped_mr_heart.yaml",
            "demos/grouped_mr_heart/grouped_mr_heart.yaml",
        ),
    ],
)
def test_grouped_mr_heart(old_config_path: str, latest_config_path: str):
    with open(old_config_path) as file:
        old_config = yaml.load(file, Loader=yaml.FullLoader)
    with open(latest_config_path) as file:
        latest_config = yaml.load(file, Loader=yaml.FullLoader)
    updated_config = parse_v011(old_config=old_config)
    assert updated_config == latest_config


class TestParseData:
    config_v011 = {
        "dir": {
            "train": "dir_train",
            "test": "dir_test",
        },
        "format": "h5",
        "labeled": True,
        "type": "paired",
    }
    config_latest = {
        "train": {
            "dir": "dir_train",
            "format": "h5",
            "labeled": True,
        },
        "test": {
            "dir": "dir_test",
            "format": "h5",
            "labeled": True,
        },
        "type": "paired",
    }

    @pytest.mark.parametrize(
        ("data_config", "expected"),
        [
            (config_v011, config_latest),
            (config_latest, config_latest),
        ],
    )
    def test_parse(self, data_config: Dict, expected: Dict):
        got = parse_data(data_config=data_config)
        assert got == expected


class TestParseModel:
    config_v011 = {
        "model": {
            "method": "dvf",
            "backbone": "global",
            "global": {"num_channel_initial": 32, "extract_levels": [0, 1, 2]},
        }
    }
    config_latest = {
        "method": "dvf",
        "backbone": {"name": "global", "num_channel_initial": 32, "depth": 2},
    }

    @pytest.mark.parametrize(
        ("model_config", "expected"),
        [
            (config_v011, config_latest),
            (config_v011["model"], config_latest),
            (config_latest, config_latest),
        ],
    )
    def test_parse(self, model_config: Dict, expected: Dict):
        got = parse_model(model_config=model_config)
        assert got == expected


class TestParseLoss:
    config_v011 = {
        "dissimilarity": {
            "image": {
                "name": "lncc",
                "weight": 2.0,
                "lncc": {
                    "kernel_size": 9,
                    "kernel_type": "rectangular",
                },
            },
        }
    }
    config_latest = {
        "image": {
            "name": "lncc",
            "weight": 2.0,
            "kernel_size": 9,
            "kernel_type": "rectangular",
        },
    }

    @pytest.mark.parametrize(
        ("loss_config", "expected"),
        [
            (config_v011, config_latest),
            (config_latest, config_latest),
        ],
    )
    def test_parse(self, loss_config: Dict, expected: Dict):
        got = parse_loss(loss_config=loss_config)
        assert got == expected


class TestParseImageLoss:
    config_v011 = {
        "image": {
            "name": "lncc",
            "weight": 2.0,
            "lncc": {
                "kernel_size": 9,
                "kernel_type": "rectangular",
            },
        },
    }
    config_latest = {
        "image": {
            "name": "lncc",
            "weight": 2.0,
            "kernel_size": 9,
            "kernel_type": "rectangular",
        },
    }

    @pytest.mark.parametrize(
        ("loss_config", "expected"),
        [
            (config_v011, config_latest),
            (config_latest, config_latest),
        ],
    )
    def test_parse(self, loss_config: Dict, expected: Dict):
        got = parse_image_loss(loss_config=loss_config)
        assert got == expected

    def test_parse_multiple_loss(self):
        loss_config = {
            "image": [
                {
                    "name": "lncc",
                    "weight": 0.5,
                    "kernel_size": 9,
                    "kernel_type": "rectangular",
                },
                {
                    "name": "ssd",
                    "weight": 0.5,
                },
            ],
        }

        got = parse_image_loss(loss_config=loss_config)
        assert got == loss_config


class TestParseLabelLoss:
    @pytest.mark.parametrize(
        ("name_loss", "expected_config"),
        [
            (
                "multi_scale",
                {
                    "label": {
                        "name": "ssd",
                        "weight": 2.0,
                        "scales": [0, 1],
                    },
                },
            ),
            (
                "single_scale",
                {
                    "label": {
                        "name": "dice",
                        "weight": 1.0,
                    },
                },
            ),
        ],
    )
    def test_parse_outdated_loss(self, name_loss: str, expected_config: Dict):
        outdated_config = {
            "label": {
                "name": name_loss,
                "single_scale": {
                    "loss_type": "dice_generalized",
                },
                "multi_scale": {
                    "loss_type": "mean-squared",
                    "loss_scales": [0, 1],
                },
            },
        }

        if name_loss == "multi_scale":
            outdated_config["label"]["weight"] = 2.0  # type: ignore

        got = parse_label_loss(loss_config=outdated_config)
        assert got == expected_config

    def test_parse_background_weight(self):
        outdated_config = {
            "label": {
                "name": "dice",
                "weight": 1.0,
                "neg_weight": 2.0,
            },
        }
        expected_config = {
            "label": {
                "name": "dice",
                "weight": 1.0,
                "background_weight": 2.0,
            },
        }
        got = parse_label_loss(loss_config=outdated_config)
        assert got == expected_config

    def test_parse_multiple_loss(self):
        loss_config = {
            "label": [
                {
                    "name": "dice",
                    "weight": 1.0,
                },
                {
                    "name": "cross-entropy",
                    "weight": 1.0,
                },
            ],
        }

        got = parse_label_loss(loss_config=loss_config)
        assert got == loss_config


class TestParseRegularizationLoss:
    @pytest.mark.parametrize(
        ("energy_type", "loss_name", "extra_args"),
        [
            ("bending", "bending", {}),
            ("gradient-l2", "gradient", {"l1": False}),
            ("gradient-l1", "gradient", {"l1": True}),
        ],
    )
    def test_parse_outdated_loss(
        self, energy_type: str, loss_name: str, extra_args: Dict
    ):

        loss_config = {
            "regularization": {
                "energy_type": energy_type,
                "weight": 2.0,
            }
        }
        expected = {
            "regularization": {
                "name": loss_name,
                "weight": 2.0,
                **extra_args,
            },
        }
        got = parse_reg_loss(loss_config=loss_config)
        assert got == expected

    def test_parse_multiple_reg_loss(self):
        loss_config = {
            "regularization": [
                {
                    "name": "bending",
                    "weight": 2.0,
                },
                {
                    "name": "gradient",
                    "weight": 2.0,
                    "l1": True,
                },
            ],
        }
        got = parse_reg_loss(loss_config=loss_config)
        assert got == loss_config


class TestParseOptimizer:
    config_v011 = {
        "name": "adam",
        "adam": {
            "learning_rate": 1.0e-4,
        },
        "sgd": {
            "learning_rate": 1.0e-4,
            "momentum": 0.9,
        },
    }
    config_latest = {
        "name": "Adam",
        "learning_rate": 1.0e-4,
    }

    @pytest.mark.parametrize(
        ("opt_config", "expected"),
        [
            (config_v011, config_latest),
            (config_latest, config_latest),
        ],
    )
    def test_parse(self, opt_config: Dict, expected: Dict):
        got = parse_optimizer(opt_config=opt_config)
        assert got == expected


1			from typing import Dict
2
3			import pytest
4			import yaml
5
6			from deepreg.config.v011 import (
7			parse_data,
8			parse_image_loss,
9			parse_label_loss,
10			parse_loss,
11			parse_model,
12			parse_optimizer,
13			parse_reg_loss,
14			parse_v011,
15			)
16
17
18			@pytest.mark.parametrize(
19			("old_config_path", "latest_config_path"),
20			[
21			(
22			"config/test/grouped_mr_heart_v011.yaml",
23			"demos/grouped_mr_heart/grouped_mr_heart.yaml",
24			),
25			(
26			"demos/grouped_mr_heart/grouped_mr_heart.yaml",
27			"demos/grouped_mr_heart/grouped_mr_heart.yaml",
28			),
29			],
30			)
31			def test_grouped_mr_heart(old_config_path: str, latest_config_path: str):
32			with open(old_config_path) as file:
33			old_config = yaml.load(file, Loader=yaml.FullLoader)
34			with open(latest_config_path) as file:
35			latest_config = yaml.load(file, Loader=yaml.FullLoader)
36			updated_config = parse_v011(old_config=old_config)
37			assert updated_config == latest_config
38
39
40			class TestParseData:
41			config_v011 = {
42			"dir": {
43			"train": "dir_train",
44			"test": "dir_test",
45			},
46			"format": "h5",
47			"labeled": True,
48			"type": "paired",
49			}
50			config_latest = {
51			"train": {
52			"dir": "dir_train",
53			"format": "h5",
54			"labeled": True,
55			},
56			"test": {
57			"dir": "dir_test",
58			"format": "h5",
59			"labeled": True,
60			},
61			"type": "paired",
62			}
63
64			@pytest.mark.parametrize(
65			("data_config", "expected"),
66			[
67			(config_v011, config_latest),
68			(config_latest, config_latest),
69			],
70			)
71			def test_parse(self, data_config: Dict, expected: Dict):
72			got = parse_data(data_config=data_config)
73			assert got == expected
74
75
76			class TestParseModel:
77			config_v011 = {
78			"model": {
79			"method": "dvf",
80			"backbone": "global",
81			"global": {"num_channel_initial": 32, "extract_levels": [0, 1, 2]},
82			}
83			}
84			config_latest = {
85			"method": "dvf",
86			"backbone": {"name": "global", "num_channel_initial": 32, "depth": 2},
87			}
88
89			@pytest.mark.parametrize(
90			("model_config", "expected"),
91			[
92			(config_v011, config_latest),
93			(config_v011["model"], config_latest),
94			(config_latest, config_latest),
95			],
96			)
97			def test_parse(self, model_config: Dict, expected: Dict):
98			got = parse_model(model_config=model_config)
99			assert got == expected
100
101
102			class TestParseLoss:
103			config_v011 = {
104			"dissimilarity": {
105			"image": {
106			"name": "lncc",
107			"weight": 2.0,
108			"lncc": {
109			"kernel_size": 9,
110			"kernel_type": "rectangular",
111			},
112			},
113			}
114			}
115			config_latest = {
116			"image": {
117			"name": "lncc",
118			"weight": 2.0,
119			"kernel_size": 9,
120			"kernel_type": "rectangular",
121			},
122			}
123
124			@pytest.mark.parametrize(
125			("loss_config", "expected"),
126			[
127			(config_v011, config_latest),
128			(config_latest, config_latest),
129			],
130			)
131			def test_parse(self, loss_config: Dict, expected: Dict):
132			got = parse_loss(loss_config=loss_config)
133			assert got == expected
134
135
136			class TestParseImageLoss:
137			config_v011 = {
138			"image": {
139			"name": "lncc",
140			"weight": 2.0,
141			"lncc": {
142			"kernel_size": 9,
143			"kernel_type": "rectangular",
144			},
145			},
146			}
147			config_latest = {
148			"image": {
149			"name": "lncc",
150			"weight": 2.0,
151			"kernel_size": 9,
152			"kernel_type": "rectangular",
153			},
154			}
155
156			@pytest.mark.parametrize(
157			("loss_config", "expected"),
158			[
159			(config_v011, config_latest),
160			(config_latest, config_latest),
161			],
162			)
163			def test_parse(self, loss_config: Dict, expected: Dict):
164			got = parse_image_loss(loss_config=loss_config)
165			assert got == expected
166
167			def test_parse_multiple_loss(self):
168			loss_config = {
169			"image": [
170			{
171			"name": "lncc",
172			"weight": 0.5,
173			"kernel_size": 9,
174			"kernel_type": "rectangular",
175			},
176			{
177			"name": "ssd",
178			"weight": 0.5,
179			},
180			],
181			}
182
183			got = parse_image_loss(loss_config=loss_config)
184			assert got == loss_config
185
186
187			class TestParseLabelLoss:
188			@pytest.mark.parametrize(
189			("name_loss", "expected_config"),
190			[
191			(
192			"multi_scale",
193			{
194			"label": {
195			"name": "ssd",
196			"weight": 2.0,
197			"scales": [0, 1],
198			},
199			},
200			),
201			(
202			"single_scale",
203			{
204			"label": {
205			"name": "dice",
206			"weight": 1.0,
207			},
208			},
209			),
210			],
211			)
212			def test_parse_outdated_loss(self, name_loss: str, expected_config: Dict):
213			outdated_config = {
214			"label": {
215			"name": name_loss,
216			"single_scale": {
217			"loss_type": "dice_generalized",
218			},
219			"multi_scale": {
220			"loss_type": "mean-squared",
221			"loss_scales": [0, 1],
222			},
223			},
224			}
225
226			if name_loss == "multi_scale":
227			outdated_config["label"]["weight"] = 2.0 # type: ignore
228
229			got = parse_label_loss(loss_config=outdated_config)
230			assert got == expected_config
231
232			def test_parse_background_weight(self):
233			outdated_config = {
234			"label": {
235			"name": "dice",
236			"weight": 1.0,
237			"neg_weight": 2.0,
238			},
239			}
240			expected_config = {
241			"label": {
242			"name": "dice",
243			"weight": 1.0,
244			"background_weight": 2.0,
245			},
246			}
247			got = parse_label_loss(loss_config=outdated_config)
248			assert got == expected_config
249
250			def test_parse_multiple_loss(self):
251			loss_config = {
252			"label": [
253			{
254			"name": "dice",
255			"weight": 1.0,
256			},
257			{
258			"name": "cross-entropy",
259			"weight": 1.0,
260			},
261			],
262			}
263
264			got = parse_label_loss(loss_config=loss_config)
265			assert got == loss_config
266
267
268			class TestParseRegularizationLoss:
269			@pytest.mark.parametrize(
270			("energy_type", "loss_name", "extra_args"),
271			[
272			("bending", "bending", {}),
273			("gradient-l2", "gradient", {"l1": False}),
274			("gradient-l1", "gradient", {"l1": True}),
275			],
276			)
277			def test_parse_outdated_loss(
278			self, energy_type: str, loss_name: str, extra_args: Dict
279			):
280
281			loss_config = {
282			"regularization": {
283			"energy_type": energy_type,
284			"weight": 2.0,
285			}
286			}
287			expected = {
288			"regularization": {
289			"name": loss_name,
290			"weight": 2.0,
291			**extra_args,
292			},
293			}
294			got = parse_reg_loss(loss_config=loss_config)
295			assert got == expected
296
297			def test_parse_multiple_reg_loss(self):
298			loss_config = {
299			"regularization": [
300			{
301			"name": "bending",
302			"weight": 2.0,
303			},
304			{
305			"name": "gradient",
306			"weight": 2.0,
307			"l1": True,
308			},
309			],
310			}
311			got = parse_reg_loss(loss_config=loss_config)
312			assert got == loss_config
313
314
315			class TestParseOptimizer:
316			config_v011 = {
317			"name": "adam",
318			"adam": {
319			"learning_rate": 1.0e-4,
320			},
321			"sgd": {
322			"learning_rate": 1.0e-4,
323			"momentum": 0.9,
324			},
325			}
326			config_latest = {
327			"name": "Adam",
328			"learning_rate": 1.0e-4,
329			}
330
331			@pytest.mark.parametrize(
332			("opt_config", "expected"),
333			[
334			(config_v011, config_latest),
335			(config_latest, config_latest),
336			],
337			)
338			def test_parse(self, opt_config: Dict, expected: Dict):
339			got = parse_optimizer(opt_config=opt_config)
340			assert got == expected
341

DeepRegNet / DeepReg

Push — main ( d3edf2...e8f714 )

TestParseLoss.test_parse() A

Complexity

Size

Duplication

Importance

Duplication Side-by-Side

Filter issues like