def test_invalid_valid_sanitize():
# get_invalid and get_valid
datasets = {}
tri_verts = [[0, 0], [1, 0], [-0.5, 3**0.5 / 2], [-0.5, -3**0.5 / 2]]
tri_edges_valid = [
[0, 1, 0],
[1, 2, 0],
[2, 0, 0],
[0, 3, 1],
[3, 1, 1],
[1, 0, 1],
[0, 2, 2],
[2, 3, 2],
[3, 0, 2],
]
tri_edges_invalid = [
[0, 1, 0],
[1, 2, 0],
[2, 0, 0],
[0, 3, 1],
[3, 1, 1],
[1, 0, 1],
[0, 2, 2],
[2, 3, 2],
[3, 1, 2],
] # changed 0 to 1 to create an invalid face
## Epithelium whose faces are all valid
##
datasets["edge"] = pd.DataFrame(data=np.array(tri_edges_valid),
columns=["srce", "trgt", "face"])
datasets["edge"].index.name = "edge"
datasets["face"] = pd.DataFrame(data=np.zeros((3, 2)), columns=["x", "y"])
datasets["face"].index.name = "face"
datasets["vert"] = pd.DataFrame(data=np.array(tri_verts),
columns=["x", "y"])
datasets["vert"].index.name = "vert"
specs = config.geometry.planar_spec()
eptm = Epithelium("valid", datasets, specs, coords=["x", "y"])
PlanarGeometry.update_all(eptm)
## Epithelium with invalid faces (last 3)
datasets_invalid = datasets.copy()
datasets_invalid["edge"] = pd.DataFrame(data=np.array(tri_edges_invalid),
columns=["srce", "trgt", "face"])
datasets_invalid["edge"].index.name = "edge"
eptm_invalid = Epithelium("invalid",
datasets_invalid,
specs,
coords=["x", "y"])
PlanarGeometry.update_all(eptm_invalid)
eptm.get_valid()
eptm_invalid.get_valid()
res_invalid_expect_all_false = eptm.get_invalid()
res_invalid_expect_some_true = eptm_invalid.get_invalid()
assert eptm.edge_df["is_valid"].all()
assert not eptm_invalid.edge_df["is_valid"][6:].all()
assert not res_invalid_expect_all_false.all()
assert res_invalid_expect_some_true[6:].all()
### testing sanitize
### edges 6 to 9 should be removed.
edge_df_before = eptm.edge_df.copy()
edge_df_invalid_before = eptm_invalid.edge_df.copy()
eptm.sanitize()
eptm_invalid.sanitize()
assert edge_df_before.equals(eptm.edge_df)
assert edge_df_invalid_before[:6].equals(eptm_invalid.edge_df)
def test_invalid_valid_sanitize():
# get_invalid and get_valid
datasets = {}
tri_verts = [[0, 0], [1, 0], [-0.5, 3**0.5 / 2], [-0.5, -3**0.5 / 2]]
tri_edges_valid = [[0, 1, 0], [1, 2, 0], [2, 0, 0], [0, 3, 1], [3, 1, 1],
[1, 0, 1], [0, 2, 2], [2, 3, 2], [3, 0, 2]]
tri_edges_invalid = [[0, 1, 0], [1, 2, 0], [2, 0, 0], [0, 3, 1], [3, 1, 1],
[1, 0, 1], [0, 2, 2], [2, 3, 2],
[3, 1, 2]] # changed 0 to 1 to create an invalid face
## Epithelium whose faces are all valid
##
datasets['edge'] = pd.DataFrame(data=np.array(tri_edges_valid),
columns=['srce', 'trgt', 'face'])
datasets['edge'].index.name = 'edge'
datasets['face'] = pd.DataFrame(data=np.zeros((3, 2)), columns=['x', 'y'])
datasets['face'].index.name = 'face'
datasets['vert'] = pd.DataFrame(data=np.array(tri_verts),
columns=['x', 'y'])
datasets['vert'].index.name = 'vert'
specs = config.geometry.planar_spec()
eptm = Epithelium('valid', datasets, specs, coords=['x', 'y'])
PlanarGeometry.update_all(eptm)
## Epithelium with invalid faces (last 3)
datasets_invalid = datasets.copy()
datasets_invalid['edge'] = pd.DataFrame(data=np.array(tri_edges_invalid),
columns=['srce', 'trgt', 'face'])
datasets_invalid['edge'].index.name = 'edge'
eptm_invalid = Epithelium('invalid',
datasets_invalid,
specs,
coords=['x', 'y'])
PlanarGeometry.update_all(eptm_invalid)
eptm.get_valid()
eptm_invalid.get_valid()
res_invalid_expect_all_false = eptm.get_invalid()
res_invalid_expect_some_true = eptm_invalid.get_invalid()
assert eptm.edge_df['is_valid'].all()
assert (not eptm_invalid.edge_df['is_valid'][6:].all())
assert (not res_invalid_expect_all_false.all())
assert res_invalid_expect_some_true[6:].all()
### testing sanitize
### edges 6 to 9 should be removed.
edge_df_before = eptm.edge_df.copy()
edge_df_invalid_before = eptm_invalid.edge_df.copy()
eptm.sanitize()
eptm_invalid.sanitize()
assert edge_df_before.equals(eptm.edge_df)
assert edge_df_invalid_before[:6].equals(eptm_invalid.edge_df)