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""" |
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Tests functions in config/parser.py |
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""" |
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import os |
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import pytest |
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import yaml |
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from testfixtures import TempDirectory |
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from deepreg.config.parser import ( |
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config_sanity_check, |
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has_wandb_callback, |
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load_configs, |
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save, |
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update_nested_dict, |
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) |
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def test_update_nested_dict(): |
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"""test update_nested_dict by checking outputs values""" |
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# two simple dicts with different keys |
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d = dict(d=1) |
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v = dict(v=0) |
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got = update_nested_dict(d, v) |
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expected = dict(d=1, v=0) |
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assert got == expected |
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# two simple dicts with same key |
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d = dict(d=1) |
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v = dict(d=0) |
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got = update_nested_dict(d, v) |
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expected = dict(d=0) |
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assert got == expected |
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# dict with nested dict without common key |
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d = dict(d=1) |
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v = dict(v=dict(x=0)) |
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got = update_nested_dict(d, v) |
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expected = dict(d=1, v=dict(x=0)) |
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assert got == expected |
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# dict with nested dict with common key |
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# fail because can not use dict to overwrite non dict values |
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d = dict(v=1) |
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v = dict(v=dict(x=0)) |
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with pytest.raises(TypeError) as err_info: |
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update_nested_dict(d, v) |
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assert "'int' object does not support item assignment" in str(err_info.value) |
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# dict with nested dict with common key |
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# pass because can use non dict to overwrite dict |
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d = dict(v=dict(x=0)) |
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v = dict(v=1) |
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got = update_nested_dict(d, v) |
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expected = dict(v=1) |
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assert got == expected |
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# dict with nested dict with common key |
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# overwrite a value |
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d = dict(v=dict(x=0, y=1)) |
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v = dict(v=dict(x=1)) |
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got = update_nested_dict(d, v) |
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expected = dict(v=dict(x=1, y=1)) |
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assert got == expected |
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# dict with nested dict with common key |
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# add a value |
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d = dict(v=dict(x=0, y=1)) |
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v = dict(v=dict(z=1)) |
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got = update_nested_dict(d, v) |
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expected = dict(v=dict(x=0, y=1, z=1)) |
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assert got == expected |
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class TestLoadConfigs: |
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def test_single_config(self): |
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with open("config/unpaired_labeled_ddf.yaml") as file: |
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expected = yaml.load(file, Loader=yaml.FullLoader) |
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got = load_configs("config/unpaired_labeled_ddf.yaml") |
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assert got == expected |
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def test_multiple_configs(self): |
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with open("config/unpaired_labeled_ddf.yaml") as file: |
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expected = yaml.load(file, Loader=yaml.FullLoader) |
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got = load_configs( |
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config_path=[ |
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"config/test/ddf.yaml", |
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"config/test/unpaired_nifti.yaml", |
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"config/test/labeled.yaml", |
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] |
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) |
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assert got == expected |
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def test_outdated_config(self): |
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with open("demos/grouped_mr_heart/grouped_mr_heart.yaml") as file: |
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expected = yaml.load(file, Loader=yaml.FullLoader) |
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got = load_configs("config/test/grouped_mr_heart_v011.yaml") |
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assert got == expected |
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updated_file_path = "config/test/updated_grouped_mr_heart_v011.yaml" |
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assert os.path.isfile(updated_file_path) |
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os.remove(updated_file_path) |
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104
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105
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def test_save(): |
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"""test save by check error and existance of file""" |
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# default file name |
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with TempDirectory() as tempdir: |
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save(config=dict(x=1), out_dir=tempdir.path) |
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assert os.path.exists(os.path.join(tempdir.path, "config.yaml")) |
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# custom file name |
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with TempDirectory() as tempdir: |
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save(config=dict(x=1), out_dir=tempdir.path, filename="test.yaml") |
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assert os.path.exists(os.path.join(tempdir.path, "test.yaml")) |
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# non yaml filename |
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with TempDirectory() as tempdir: |
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with pytest.raises(AssertionError): |
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save(config=dict(x=1), out_dir=tempdir.path, filename="test.txt") |
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122
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123
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class TestConfigSanityCheck: |
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def test_cond_err(self): |
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"""Test error message for conditional model.""" |
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with pytest.raises(ValueError) as err_info: |
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config_sanity_check( |
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config=dict( |
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dataset=dict( |
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type="paired", |
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format="h5", |
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dir=dict(train=None, valid=None, test=None), |
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labeled=False, |
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), |
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train=dict( |
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method="conditional", |
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loss=dict(), |
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preprocess=dict(), |
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optimizer=dict(name="Adam"), |
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), |
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) |
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) |
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assert ( |
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"For conditional model, data have to be labeled, got unlabeled data." |
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in str(err_info.value) |
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) |
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<<<<<<< HEAD |
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======= |
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assert "data_dir for mode train must be string or list of strings" in str( |
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err_info.value |
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) |
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153
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# use unlabeled data for conditional model |
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with pytest.raises(ValueError) as err_info: |
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config_sanity_check( |
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config=dict( |
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dataset=dict( |
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type="paired", |
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format="h5", |
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dir=dict(train=None, valid=None, test=None), |
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labeled=False, |
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), |
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train=dict( |
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method="conditional", |
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loss=dict(), |
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preprocess=dict(), |
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optimizer=dict(name="Adam"), |
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), |
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) |
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) |
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assert "For conditional model, data have to be labeled, got unlabeled data." in str( |
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err_info.value |
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) |
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# check warnings |
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# train/valid/test of dir is None |
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# all loss weight <= 0 |
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caplog.clear() # clear previous log |
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config_sanity_check( |
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config=dict( |
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dataset=dict( |
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type="paired", |
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format="h5", |
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dir=dict(train=None, valid=None, test=None), |
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labeled=False, |
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), |
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train=dict( |
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method="ddf", |
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loss=dict( |
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image=dict(name="lncc", weight=0.0), |
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label=dict(name="ssd", weight=0.0), |
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regularization=dict(name="bending", weight=0.0), |
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), |
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preprocess=dict(), |
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optimizer=dict(name="Adam"), |
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), |
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) |
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) |
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# warning messages can be detected together |
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200
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assert "Data directory for train is not defined." in caplog.text |
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assert "Data directory for valid is not defined." in caplog.text |
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assert "Data directory for test is not defined." in caplog.text |
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203
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204
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205
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@pytest.mark.parametrize( |
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"""test_dict, expect""", [[{"wandb": True}, True], [{"random": False}, False]] |
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207
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) |
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def test_has_wandb_callback(test_dict, expect): |
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""" |
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210
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Testing whether function returns expected value |
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from has_wandb_callback |
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""" |
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213
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get = has_wandb_callback(test_dict) |
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assert get == expect |
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>>>>>>> 6448de8c2388756a84bd8c33fa35b3176f09c1c7 |
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DeepRegNet /
DeepReg
