comparison env/lib/python3.9/site-packages/networkx/algorithms/approximation/tests/test_treewidth.py @ 0:4f3585e2f14b draft default tip

"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"

0:4f3585e2f14b

import networkx as nx
from networkx.algorithms.approximation import treewidth_min_degree
from networkx.algorithms.approximation import treewidth_min_fill_in
from networkx.algorithms.approximation.treewidth import min_fill_in_heuristic
from networkx.algorithms.approximation.treewidth import MinDegreeHeuristic
import itertools


def is_tree_decomp(graph, decomp):
    """Check if the given tree decomposition is valid."""
    for x in graph.nodes():
        appear_once = False
        for bag in decomp.nodes():
            if x in bag:
                appear_once = True
                break
        assert appear_once

    # Check if each connected pair of nodes are at least once together in a bag
    for (x, y) in graph.edges():
        appear_together = False
        for bag in decomp.nodes():
            if x in bag and y in bag:
                appear_together = True
                break
        assert appear_together

    # Check if the nodes associated with vertex v form a connected subset of T
    for v in graph.nodes():
        subset = []
        for bag in decomp.nodes():
            if v in bag:
                subset.append(bag)
        sub_graph = decomp.subgraph(subset)
        assert nx.is_connected(sub_graph)


class TestTreewidthMinDegree:
    """Unit tests for the min_degree function"""

    @classmethod
    def setup_class(cls):
        """Setup for different kinds of trees"""
        cls.complete = nx.Graph()
        cls.complete.add_edge(1, 2)
        cls.complete.add_edge(2, 3)
        cls.complete.add_edge(1, 3)

        cls.small_tree = nx.Graph()
        cls.small_tree.add_edge(1, 3)
        cls.small_tree.add_edge(4, 3)
        cls.small_tree.add_edge(2, 3)
        cls.small_tree.add_edge(3, 5)
        cls.small_tree.add_edge(5, 6)
        cls.small_tree.add_edge(5, 7)
        cls.small_tree.add_edge(6, 7)

        cls.deterministic_graph = nx.Graph()
        cls.deterministic_graph.add_edge(0, 1)  # deg(0) = 1

        cls.deterministic_graph.add_edge(1, 2)  # deg(1) = 2

        cls.deterministic_graph.add_edge(2, 3)
        cls.deterministic_graph.add_edge(2, 4)  # deg(2) = 3

        cls.deterministic_graph.add_edge(3, 4)
        cls.deterministic_graph.add_edge(3, 5)
        cls.deterministic_graph.add_edge(3, 6)  # deg(3) = 4

        cls.deterministic_graph.add_edge(4, 5)
        cls.deterministic_graph.add_edge(4, 6)
        cls.deterministic_graph.add_edge(4, 7)  # deg(4) = 5

        cls.deterministic_graph.add_edge(5, 6)
        cls.deterministic_graph.add_edge(5, 7)
        cls.deterministic_graph.add_edge(5, 8)
        cls.deterministic_graph.add_edge(5, 9)  # deg(5) = 6

        cls.deterministic_graph.add_edge(6, 7)
        cls.deterministic_graph.add_edge(6, 8)
        cls.deterministic_graph.add_edge(6, 9)  # deg(6) = 6

        cls.deterministic_graph.add_edge(7, 8)
        cls.deterministic_graph.add_edge(7, 9)  # deg(7) = 5

        cls.deterministic_graph.add_edge(8, 9)  # deg(8) = 4

    def test_petersen_graph(self):
        """Test Petersen graph tree decomposition result"""
        G = nx.petersen_graph()
        _, decomp = treewidth_min_degree(G)
        is_tree_decomp(G, decomp)

    def test_small_tree_treewidth(self):
        """Test small tree

        Test if the computed treewidth of the known self.small_tree is 2.
        As we know which value we can expect from our heuristic, values other
        than two are regressions
        """
        G = self.small_tree
        # the order of removal should be [1,2,4]3[5,6,7]
        # (with [] denoting any order of the containing nodes)
        # resulting in treewidth 2 for the heuristic
        treewidth, _ = treewidth_min_fill_in(G)
        assert treewidth == 2

    def test_heuristic_abort(self):
        """Test heuristic abort condition for fully connected graph"""
        graph = {}
        for u in self.complete:
            graph[u] = set()
            for v in self.complete[u]:
                if u != v:  # ignore self-loop
                    graph[u].add(v)

        deg_heuristic = MinDegreeHeuristic(graph)
        node = deg_heuristic.best_node(graph)
        if node is None:
            pass
        else:
            assert False

    def test_empty_graph(self):
        """Test empty graph"""
        G = nx.Graph()
        _, _ = treewidth_min_degree(G)

    def test_two_component_graph(self):
        """Test empty graph"""
        G = nx.Graph()
        G.add_node(1)
        G.add_node(2)
        treewidth, _ = treewidth_min_degree(G)
        assert treewidth == 0

    def test_heuristic_first_steps(self):
        """Test first steps of min_degree heuristic"""
        graph = {
            n: set(self.deterministic_graph[n]) - {n} for n in self.deterministic_graph
        }
        deg_heuristic = MinDegreeHeuristic(graph)
        elim_node = deg_heuristic.best_node(graph)
        print(f"Graph {graph}:")
        steps = []

        while elim_node is not None:
            print(f"Removing {elim_node}:")
            steps.append(elim_node)
            nbrs = graph[elim_node]

            for u, v in itertools.permutations(nbrs, 2):
                if v not in graph[u]:
                    graph[u].add(v)

            for u in graph:
                if elim_node in graph[u]:
                    graph[u].remove(elim_node)

            del graph[elim_node]
            print(f"Graph {graph}:")
            elim_node = deg_heuristic.best_node(graph)

        # check only the first 5 elements for equality
        assert steps[:5] == [0, 1, 2, 3, 4]


class TestTreewidthMinFillIn:
    """Unit tests for the treewidth_min_fill_in function."""

    @classmethod
    def setup_class(cls):
        """Setup for different kinds of trees"""
        cls.complete = nx.Graph()
        cls.complete.add_edge(1, 2)
        cls.complete.add_edge(2, 3)
        cls.complete.add_edge(1, 3)

        cls.small_tree = nx.Graph()
        cls.small_tree.add_edge(1, 2)
        cls.small_tree.add_edge(2, 3)
        cls.small_tree.add_edge(3, 4)
        cls.small_tree.add_edge(1, 4)
        cls.small_tree.add_edge(2, 4)
        cls.small_tree.add_edge(4, 5)
        cls.small_tree.add_edge(5, 6)
        cls.small_tree.add_edge(5, 7)
        cls.small_tree.add_edge(6, 7)

        cls.deterministic_graph = nx.Graph()
        cls.deterministic_graph.add_edge(1, 2)
        cls.deterministic_graph.add_edge(1, 3)
        cls.deterministic_graph.add_edge(3, 4)
        cls.deterministic_graph.add_edge(2, 4)
        cls.deterministic_graph.add_edge(3, 5)
        cls.deterministic_graph.add_edge(4, 5)
        cls.deterministic_graph.add_edge(3, 6)
        cls.deterministic_graph.add_edge(5, 6)

    def test_petersen_graph(self):
        """Test Petersen graph tree decomposition result"""
        G = nx.petersen_graph()
        _, decomp = treewidth_min_fill_in(G)
        is_tree_decomp(G, decomp)

    def test_small_tree_treewidth(self):
        """Test if the computed treewidth of the known self.small_tree is 2"""
        G = self.small_tree
        # the order of removal should be [1,2,4]3[5,6,7]
        # (with [] denoting any order of the containing nodes)
        # resulting in treewidth 2 for the heuristic
        treewidth, _ = treewidth_min_fill_in(G)
        assert treewidth == 2

    def test_heuristic_abort(self):
        """Test if min_fill_in returns None for fully connected graph"""
        graph = {}
        for u in self.complete:
            graph[u] = set()
            for v in self.complete[u]:
                if u != v:  # ignore self-loop
                    graph[u].add(v)
        next_node = min_fill_in_heuristic(graph)
        if next_node is None:
            pass
        else:
            assert False

    def test_empty_graph(self):
        """Test empty graph"""
        G = nx.Graph()
        _, _ = treewidth_min_fill_in(G)

    def test_two_component_graph(self):
        """Test empty graph"""
        G = nx.Graph()
        G.add_node(1)
        G.add_node(2)
        treewidth, _ = treewidth_min_fill_in(G)
        assert treewidth == 0

    def test_heuristic_first_steps(self):
        """Test first steps of min_fill_in heuristic"""
        graph = {
            n: set(self.deterministic_graph[n]) - {n} for n in self.deterministic_graph
        }
        print(f"Graph {graph}:")
        elim_node = min_fill_in_heuristic(graph)
        steps = []

        while elim_node is not None:
            print(f"Removing {elim_node}:")
            steps.append(elim_node)
            nbrs = graph[elim_node]

            for u, v in itertools.permutations(nbrs, 2):
                if v not in graph[u]:
                    graph[u].add(v)

            for u in graph:
                if elim_node in graph[u]:
                    graph[u].remove(elim_node)

            del graph[elim_node]
            print(f"Graph {graph}:")
            elim_node = min_fill_in_heuristic(graph)

        # check only the first 2 elements for equality
        assert steps[:2] == [6, 5]