def test_all_fluor_trace_feature():
"""All FLUOR_TRACES feature names should be captured by "trace" """
user_feats = ["trace"]
feats = map_requested_features_to_defined_features(user_feats)
sc, tr, im = feats
assert tr == [
"fl1_median", "fl1_raw", "fl2_median", "fl2_raw", "fl3_median",
"fl3_raw"
]
def test_basic_feature_mapping_with_traces():
user_feats = ["image", "deform", "mask", "area_cvx", "trace/fl3_median"]
feats = map_requested_features_to_defined_features(user_feats)
assert isinstance(feats, list)
assert len(feats) == 3
sc, tr, im = feats
assert sc == ["deform", "area_cvx"]
assert tr == ["fl3_median"]
assert im == ["image", "mask"]
def test_basic_feature_mapping():
user_feats = ["image", "deform", "mask", "area_cvx"]
feats = map_requested_features_to_defined_features(user_feats)
assert isinstance(feats, list)
assert len(feats) == 3
sc, tr, im = feats
assert sc == ["deform", "area_cvx"]
assert not tr
assert im == ["image", "mask"]
flattened_feats = [i for sublist in feats for i in sublist]
for u_f in user_feats:
assert u_f in flattened_feats
def test_mix_fluor_traces_input():
"""A mix of FLUOR_TRACES feature names should be valid"""
user_feats = ["trace/fl1_median", "fl2_raw"]
feats = map_requested_features_to_defined_features(user_feats)
sc, tr, im = feats
assert tr == ["fl1_median", "fl2_raw"]
def test_fluor_trace_feature_with_slash():
"""A FLUOR_TRACES feature name prefixed with "trace/" should be valid"""
user_feats = ["trace/fl1_median"]
feats = map_requested_features_to_defined_features(user_feats)
sc, tr, im = feats
assert tr == ["fl1_median"]
def test_single_fluor_trace_feature():
"""A single FLUOR_TRACES feature name should be valid"""
user_feats = ["fl1_median"]
feats = map_requested_features_to_defined_features(user_feats)
sc, tr, im = feats
assert tr == ["fl1_median"]
def test_incorrect_feature_spelling():
user_feats = ["reform"]
with pytest.raises(ValueError):
map_requested_features_to_defined_features(user_feats)
def test_incorrect_feature_spelling_uppercase():
user_feats = ["IMAGE"]
with pytest.raises(ValueError):
map_requested_features_to_defined_features(user_feats)