okstra 0.114.0 → 0.116.0

package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_d_separation.py

@@ -1,340 +0,0 @@
-from itertools import combinations
-
-import pytest
-
-import networkx as nx
-
-
-def path_graph():
-    """Return a path graph of length three."""
-    G = nx.path_graph(3, create_using=nx.DiGraph)
-    G.graph["name"] = "path"
-    nx.freeze(G)
-    return G
-
-
-def fork_graph():
-    """Return a three node fork graph."""
-    G = nx.DiGraph(name="fork")
-    G.add_edges_from([(0, 1), (0, 2)])
-    nx.freeze(G)
-    return G
-
-
-def collider_graph():
-    """Return a collider/v-structure graph with three nodes."""
-    G = nx.DiGraph(name="collider")
-    G.add_edges_from([(0, 2), (1, 2)])
-    nx.freeze(G)
-    return G
-
-
-def naive_bayes_graph():
-    """Return a simply Naive Bayes PGM graph."""
-    G = nx.DiGraph(name="naive_bayes")
-    G.add_edges_from([(0, 1), (0, 2), (0, 3), (0, 4)])
-    nx.freeze(G)
-    return G
-
-
-def asia_graph():
-    """Return the 'Asia' PGM graph."""
-    G = nx.DiGraph(name="asia")
-    G.add_edges_from(
-        [
-            ("asia", "tuberculosis"),
-            ("smoking", "cancer"),
-            ("smoking", "bronchitis"),
-            ("tuberculosis", "either"),
-            ("cancer", "either"),
-            ("either", "xray"),
-            ("either", "dyspnea"),
-            ("bronchitis", "dyspnea"),
-        ]
-    )
-    nx.freeze(G)
-    return G
-
-
-@pytest.fixture(name="path_graph")
-def path_graph_fixture():
-    return path_graph()
-
-
-@pytest.fixture(name="fork_graph")
-def fork_graph_fixture():
-    return fork_graph()
-
-
-@pytest.fixture(name="collider_graph")
-def collider_graph_fixture():
-    return collider_graph()
-
-
-@pytest.fixture(name="naive_bayes_graph")
-def naive_bayes_graph_fixture():
-    return naive_bayes_graph()
-
-
-@pytest.fixture(name="asia_graph")
-def asia_graph_fixture():
-    return asia_graph()
-
-
-@pytest.fixture()
-def large_collider_graph():
-    edge_list = [("A", "B"), ("C", "B"), ("B", "D"), ("D", "E"), ("B", "F"), ("G", "E")]
-    G = nx.DiGraph(edge_list)
-    return G
-
-
-@pytest.fixture()
-def chain_and_fork_graph():
-    edge_list = [("A", "B"), ("B", "C"), ("B", "D"), ("D", "C")]
-    G = nx.DiGraph(edge_list)
-    return G
-
-
-@pytest.fixture()
-def no_separating_set_graph():
-    edge_list = [("A", "B")]
-    G = nx.DiGraph(edge_list)
-    return G
-
-
-@pytest.fixture()
-def large_no_separating_set_graph():
-    edge_list = [("A", "B"), ("C", "A"), ("C", "B")]
-    G = nx.DiGraph(edge_list)
-    return G
-
-
-@pytest.fixture()
-def collider_trek_graph():
-    edge_list = [("A", "B"), ("C", "B"), ("C", "D")]
-    G = nx.DiGraph(edge_list)
-    return G
-
-
-@pytest.mark.parametrize(
-    "graph",
-    [path_graph(), fork_graph(), collider_graph(), naive_bayes_graph(), asia_graph()],
-)
-def test_markov_condition(graph):
-    """Test that the Markov condition holds for each PGM graph."""
-    for node in graph.nodes:
-        parents = set(graph.predecessors(node))
-        non_descendants = graph.nodes - nx.descendants(graph, node) - {node} - parents
-        assert nx.is_d_separator(graph, {node}, non_descendants, parents)
-
-
-def test_path_graph_dsep(path_graph):
-    """Example-based test of d-separation for path_graph."""
-    assert nx.is_d_separator(path_graph, {0}, {2}, {1})
-    assert not nx.is_d_separator(path_graph, {0}, {2}, set())
-
-
-def test_fork_graph_dsep(fork_graph):
-    """Example-based test of d-separation for fork_graph."""
-    assert nx.is_d_separator(fork_graph, {1}, {2}, {0})
-    assert not nx.is_d_separator(fork_graph, {1}, {2}, set())
-
-
-def test_collider_graph_dsep(collider_graph):
-    """Example-based test of d-separation for collider_graph."""
-    assert nx.is_d_separator(collider_graph, {0}, {1}, set())
-    assert not nx.is_d_separator(collider_graph, {0}, {1}, {2})
-
-
-def test_naive_bayes_dsep(naive_bayes_graph):
-    """Example-based test of d-separation for naive_bayes_graph."""
-    for u, v in combinations(range(1, 5), 2):
-        assert nx.is_d_separator(naive_bayes_graph, {u}, {v}, {0})
-        assert not nx.is_d_separator(naive_bayes_graph, {u}, {v}, set())
-
-
-def test_asia_graph_dsep(asia_graph):
-    """Example-based test of d-separation for asia_graph."""
-    assert nx.is_d_separator(
-        asia_graph, {"asia", "smoking"}, {"dyspnea", "xray"}, {"bronchitis", "either"}
-    )
-    assert nx.is_d_separator(
-        asia_graph, {"tuberculosis", "cancer"}, {"bronchitis"}, {"smoking", "xray"}
-    )
-
-
-def test_undirected_graphs_are_not_supported():
-    """
-    Test that undirected graphs are not supported.
-
-    d-separation and its related algorithms do not apply in
-    the case of undirected graphs.
-    """
-    g = nx.path_graph(3, nx.Graph)
-    with pytest.raises(nx.NetworkXNotImplemented):
-        nx.is_d_separator(g, {0}, {1}, {2})
-    with pytest.raises(nx.NetworkXNotImplemented):
-        nx.is_minimal_d_separator(g, {0}, {1}, {2})
-    with pytest.raises(nx.NetworkXNotImplemented):
-        nx.find_minimal_d_separator(g, {0}, {1})
-
-
-def test_cyclic_graphs_raise_error():
-    """
-    Test that cycle graphs should cause erroring.
-
-    This is because PGMs assume a directed acyclic graph.
-    """
-    g = nx.cycle_graph(3, nx.DiGraph)
-    with pytest.raises(nx.NetworkXError):
-        nx.is_d_separator(g, {0}, {1}, {2})
-    with pytest.raises(nx.NetworkXError):
-        nx.find_minimal_d_separator(g, {0}, {1})
-    with pytest.raises(nx.NetworkXError):
-        nx.is_minimal_d_separator(g, {0}, {1}, {2})
-
-
-def test_invalid_nodes_raise_error(asia_graph):
-    """
-    Test that graphs that have invalid nodes passed in raise errors.
-    """
-    # Check both set and node arguments
-    with pytest.raises(nx.NodeNotFound):
-        nx.is_d_separator(asia_graph, {0}, {1}, {2})
-    with pytest.raises(nx.NodeNotFound):
-        nx.is_d_separator(asia_graph, 0, 1, 2)
-    with pytest.raises(nx.NodeNotFound):
-        nx.is_minimal_d_separator(asia_graph, {0}, {1}, {2})
-    with pytest.raises(nx.NodeNotFound):
-        nx.is_minimal_d_separator(asia_graph, 0, 1, 2)
-    with pytest.raises(nx.NodeNotFound):
-        nx.find_minimal_d_separator(asia_graph, {0}, {1})
-    with pytest.raises(nx.NodeNotFound):
-        nx.find_minimal_d_separator(asia_graph, 0, 1)
-
-
-def test_nondisjoint_node_sets_raise_error(collider_graph):
-    """
-    Test that error is raised when node sets aren't disjoint.
-    """
-    with pytest.raises(nx.NetworkXError):
-        nx.is_d_separator(collider_graph, 0, 1, 0)
-    with pytest.raises(nx.NetworkXError):
-        nx.is_d_separator(collider_graph, 0, 2, 0)
-    with pytest.raises(nx.NetworkXError):
-        nx.is_d_separator(collider_graph, 0, 0, 1)
-    with pytest.raises(nx.NetworkXError):
-        nx.is_d_separator(collider_graph, 1, 0, 0)
-    with pytest.raises(nx.NetworkXError):
-        nx.find_minimal_d_separator(collider_graph, 0, 0)
-    with pytest.raises(nx.NetworkXError):
-        nx.find_minimal_d_separator(collider_graph, 0, 1, included=0)
-    with pytest.raises(nx.NetworkXError):
-        nx.find_minimal_d_separator(collider_graph, 1, 0, included=0)
-    with pytest.raises(nx.NetworkXError):
-        nx.is_minimal_d_separator(collider_graph, 0, 0, set())
-    with pytest.raises(nx.NetworkXError):
-        nx.is_minimal_d_separator(collider_graph, 0, 1, set(), included=0)
-    with pytest.raises(nx.NetworkXError):
-        nx.is_minimal_d_separator(collider_graph, 1, 0, set(), included=0)
-
-
-def test_is_minimal_d_separator(
-    large_collider_graph,
-    chain_and_fork_graph,
-    no_separating_set_graph,
-    large_no_separating_set_graph,
-    collider_trek_graph,
-):
-    # Case 1:
-    # create a graph A -> B <- C
-    # B -> D -> E;
-    # B -> F;
-    # G -> E;
-    assert not nx.is_d_separator(large_collider_graph, {"B"}, {"E"}, set())
-
-    # minimal set of the corresponding graph
-    # for B and E should be (D,)
-    Zmin = nx.find_minimal_d_separator(large_collider_graph, "B", "E")
-    # check that the minimal d-separator is a d-separating set
-    assert nx.is_d_separator(large_collider_graph, "B", "E", Zmin)
-    # the minimal separating set should also pass the test for minimality
-    assert nx.is_minimal_d_separator(large_collider_graph, "B", "E", Zmin)
-    # function should also work with set arguments
-    assert nx.is_minimal_d_separator(large_collider_graph, {"A", "B"}, {"G", "E"}, Zmin)
-    assert Zmin == {"D"}
-
-    # Case 2:
-    # create a graph A -> B -> C
-    # B -> D -> C;
-    assert not nx.is_d_separator(chain_and_fork_graph, {"A"}, {"C"}, set())
-    Zmin = nx.find_minimal_d_separator(chain_and_fork_graph, "A", "C")
-
-    # the minimal separating set should pass the test for minimality
-    assert nx.is_minimal_d_separator(chain_and_fork_graph, "A", "C", Zmin)
-    assert Zmin == {"B"}
-    Znotmin = Zmin.union({"D"})
-    assert not nx.is_minimal_d_separator(chain_and_fork_graph, "A", "C", Znotmin)
-
-    # Case 3:
-    # create a graph A -> B
-
-    # there is no m-separating set between A and B at all, so
-    # no minimal m-separating set can exist
-    assert not nx.is_d_separator(no_separating_set_graph, {"A"}, {"B"}, set())
-    assert nx.find_minimal_d_separator(no_separating_set_graph, "A", "B") is None
-
-    # Case 4:
-    # create a graph A -> B with A <- C -> B
-
-    # there is no m-separating set between A and B at all, so
-    # no minimal m-separating set can exist
-    # however, the algorithm will initially propose C as a
-    # minimal (but invalid) separating set
-    assert not nx.is_d_separator(large_no_separating_set_graph, {"A"}, {"B"}, {"C"})
-    assert nx.find_minimal_d_separator(large_no_separating_set_graph, "A", "B") is None
-
-    # Test `included` and `excluded` args
-    # create graph A -> B <- C -> D
-    assert nx.find_minimal_d_separator(collider_trek_graph, "A", "D", included="B") == {
-        "B",
-        "C",
-    }
-    assert (
-        nx.find_minimal_d_separator(
-            collider_trek_graph, "A", "D", included="B", restricted="B"
-        )
-        is None
-    )
-
-
-def test_is_minimal_d_separator_checks_dsep():
-    """Test that is_minimal_d_separator checks for d-separation as well."""
-    g = nx.DiGraph()
-    g.add_edges_from(
-        [
-            ("A", "B"),
-            ("A", "E"),
-            ("B", "C"),
-            ("B", "D"),
-            ("D", "C"),
-            ("D", "F"),
-            ("E", "D"),
-            ("E", "F"),
-        ]
-    )
-
-    assert not nx.is_d_separator(g, {"C"}, {"F"}, {"D"})
-
-    # since {'D'} and {} are not d-separators, we return false
-    assert not nx.is_minimal_d_separator(g, "C", "F", {"D"})
-    assert not nx.is_minimal_d_separator(g, "C", "F", set())
-
-
-def test__reachable(large_collider_graph):
-    reachable = nx.algorithms.d_separation._reachable
-    g = large_collider_graph
-    x = {"F", "D"}
-    ancestors = {"A", "B", "C", "D", "F"}
-    assert reachable(g, x, ancestors, {"B"}) == {"B", "F", "D"}
-    assert reachable(g, x, ancestors, set()) == ancestors