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llmeval-env/lib/python3.10/site-packages/networkx/algorithms/coloring/__init__.py

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+from networkx.algorithms.coloring.greedy_coloring import *
+from networkx.algorithms.coloring.equitable_coloring import equitable_color
+
+__all__ = ["greedy_color", "equitable_color"]

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/coloring/equitable_coloring.py

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+"""
+Equitable coloring of graphs with bounded degree.
+"""
+
+from collections import defaultdict
+
+import networkx as nx
+
+__all__ = ["equitable_color"]
+
+
+@nx._dispatchable
+def is_coloring(G, coloring):
+    """Determine if the coloring is a valid coloring for the graph G."""
+    # Verify that the coloring is valid.
+    return all(coloring[s] != coloring[d] for s, d in G.edges)
+
+
+@nx._dispatchable
+def is_equitable(G, coloring, num_colors=None):
+    """Determines if the coloring is valid and equitable for the graph G."""
+
+    if not is_coloring(G, coloring):
+        return False
+
+    # Verify whether it is equitable.
+    color_set_size = defaultdict(int)
+    for color in coloring.values():
+        color_set_size[color] += 1
+
+    if num_colors is not None:
+        for color in range(num_colors):
+            if color not in color_set_size:
+                # These colors do not have any vertices attached to them.
+                color_set_size[color] = 0
+
+    # If there are more than 2 distinct values, the coloring cannot be equitable
+    all_set_sizes = set(color_set_size.values())
+    if len(all_set_sizes) == 0 and num_colors is None:  # Was an empty graph
+        return True
+    elif len(all_set_sizes) == 1:
+        return True
+    elif len(all_set_sizes) == 2:
+        a, b = list(all_set_sizes)
+        return abs(a - b) <= 1
+    else:  # len(all_set_sizes) > 2:
+        return False
+
+
+def make_C_from_F(F):
+    C = defaultdict(list)
+    for node, color in F.items():
+        C[color].append(node)
+
+    return C
+
+
+def make_N_from_L_C(L, C):
+    nodes = L.keys()
+    colors = C.keys()
+    return {
+        (node, color): sum(1 for v in L[node] if v in C[color])
+        for node in nodes
+        for color in colors
+    }
+
+
+def make_H_from_C_N(C, N):
+    return {
+        (c1, c2): sum(1 for node in C[c1] if N[(node, c2)] == 0) for c1 in C for c2 in C
+    }
+
+
+def change_color(u, X, Y, N, H, F, C, L):
+    """Change the color of 'u' from X to Y and update N, H, F, C."""
+    assert F[u] == X and X != Y
+
+    # Change the class of 'u' from X to Y
+    F[u] = Y
+
+    for k in C:
+        # 'u' witnesses an edge from k -> Y instead of from k -> X now.
+        if N[u, k] == 0:
+            H[(X, k)] -= 1
+            H[(Y, k)] += 1
+
+    for v in L[u]:
+        # 'v' has lost a neighbor in X and gained one in Y
+        N[(v, X)] -= 1
+        N[(v, Y)] += 1
+
+        if N[(v, X)] == 0:
+            # 'v' witnesses F[v] -> X
+            H[(F[v], X)] += 1
+
+        if N[(v, Y)] == 1:
+            # 'v' no longer witnesses F[v] -> Y
+            H[(F[v], Y)] -= 1
+
+    C[X].remove(u)
+    C[Y].append(u)
+
+
+def move_witnesses(src_color, dst_color, N, H, F, C, T_cal, L):
+    """Move witness along a path from src_color to dst_color."""
+    X = src_color
+    while X != dst_color:
+        Y = T_cal[X]
+        # Move _any_ witness from X to Y = T_cal[X]
+        w = next(x for x in C[X] if N[(x, Y)] == 0)
+        change_color(w, X, Y, N=N, H=H, F=F, C=C, L=L)
+        X = Y
+
+
+@nx._dispatchable(mutates_input=True)
+def pad_graph(G, num_colors):
+    """Add a disconnected complete clique K_p such that the number of nodes in
+    the graph becomes a multiple of `num_colors`.
+
+    Assumes that the graph's nodes are labelled using integers.
+
+    Returns the number of nodes with each color.
+    """
+
+    n_ = len(G)
+    r = num_colors - 1
+
+    # Ensure that the number of nodes in G is a multiple of (r + 1)
+    s = n_ // (r + 1)
+    if n_ != s * (r + 1):
+        p = (r + 1) - n_ % (r + 1)
+        s += 1
+
+        # Complete graph K_p between (imaginary) nodes [n_, ... , n_ + p]
+        K = nx.relabel_nodes(nx.complete_graph(p), {idx: idx + n_ for idx in range(p)})
+        G.add_edges_from(K.edges)
+
+    return s
+
+
+def procedure_P(V_minus, V_plus, N, H, F, C, L, excluded_colors=None):
+    """Procedure P as described in the paper."""
+
+    if excluded_colors is None:
+        excluded_colors = set()
+
+    A_cal = set()
+    T_cal = {}
+    R_cal = []
+
+    # BFS to determine A_cal, i.e. colors reachable from V-
+    reachable = [V_minus]
+    marked = set(reachable)
+    idx = 0
+
+    while idx < len(reachable):
+        pop = reachable[idx]
+        idx += 1
+
+        A_cal.add(pop)
+        R_cal.append(pop)
+
+        # TODO: Checking whether a color has been visited can be made faster by
+        # using a look-up table instead of testing for membership in a set by a
+        # logarithmic factor.
+        next_layer = []
+        for k in C:
+            if (
+                H[(k, pop)] > 0
+                and k not in A_cal
+                and k not in excluded_colors
+                and k not in marked
+            ):
+                next_layer.append(k)
+
+        for dst in next_layer:
+            # Record that `dst` can reach `pop`
+            T_cal[dst] = pop
+
+        marked.update(next_layer)
+        reachable.extend(next_layer)
+
+    # Variables for the algorithm
+    b = len(C) - len(A_cal)
+
+    if V_plus in A_cal:
+        # Easy case: V+ is in A_cal
+        # Move one node from V+ to V- using T_cal to find the parents.
+        move_witnesses(V_plus, V_minus, N=N, H=H, F=F, C=C, T_cal=T_cal, L=L)
+    else:
+        # If there is a solo edge, we can resolve the situation by
+        # moving witnesses from B to A, making G[A] equitable and then
+        # recursively balancing G[B - w] with a different V_minus and
+        # but the same V_plus.
+
+        A_0 = set()
+        A_cal_0 = set()
+        num_terminal_sets_found = 0
+        made_equitable = False
+
+        for W_1 in R_cal[::-1]:
+            for v in C[W_1]:
+                X = None
+
+                for U in C:
+                    if N[(v, U)] == 0 and U in A_cal and U != W_1:
+                        X = U
+
+                # v does not witness an edge in H[A_cal]
+                if X is None:
+                    continue
+
+                for U in C:
+                    # Note: Departing from the paper here.
+                    if N[(v, U)] >= 1 and U not in A_cal:
+                        X_prime = U
+                        w = v
+
+                        try:
+                            # Finding the solo neighbor of w in X_prime
+                            y = next(
+                                node
+                                for node in L[w]
+                                if F[node] == X_prime and N[(node, W_1)] == 1
+                            )
+                        except StopIteration:
+                            pass
+                        else:
+                            W = W_1
+
+                            # Move w from W to X, now X has one extra node.
+                            change_color(w, W, X, N=N, H=H, F=F, C=C, L=L)
+
+                            # Move witness from X to V_minus, making the coloring
+                            # equitable.
+                            move_witnesses(
+                                src_color=X,
+                                dst_color=V_minus,
+                                N=N,
+                                H=H,
+                                F=F,
+                                C=C,
+                                T_cal=T_cal,
+                                L=L,
+                            )
+
+                            # Move y from X_prime to W, making W the correct size.
+                            change_color(y, X_prime, W, N=N, H=H, F=F, C=C, L=L)
+
+                            # Then call the procedure on G[B - y]
+                            procedure_P(
+                                V_minus=X_prime,
+                                V_plus=V_plus,
+                                N=N,
+                                H=H,
+                                C=C,
+                                F=F,
+                                L=L,
+                                excluded_colors=excluded_colors.union(A_cal),
+                            )
+                            made_equitable = True
+                            break
+
+                if made_equitable:
+                    break
+            else:
+                # No node in W_1 was found such that
+                # it had a solo-neighbor.
+                A_cal_0.add(W_1)
+                A_0.update(C[W_1])
+                num_terminal_sets_found += 1
+
+            if num_terminal_sets_found == b:
+                # Otherwise, construct the maximal independent set and find
+                # a pair of z_1, z_2 as in Case II.
+
+                # BFS to determine B_cal': the set of colors reachable from V+
+                B_cal_prime = set()
+                T_cal_prime = {}
+
+                reachable = [V_plus]
+                marked = set(reachable)
+                idx = 0
+                while idx < len(reachable):
+                    pop = reachable[idx]
+                    idx += 1
+
+                    B_cal_prime.add(pop)
+
+                    # No need to check for excluded_colors here because
+                    # they only exclude colors from A_cal
+                    next_layer = [
+                        k
+                        for k in C
+                        if H[(pop, k)] > 0 and k not in B_cal_prime and k not in marked
+                    ]
+
+                    for dst in next_layer:
+                        T_cal_prime[pop] = dst
+
+                    marked.update(next_layer)
+                    reachable.extend(next_layer)
+
+                # Construct the independent set of G[B']
+                I_set = set()
+                I_covered = set()
+                W_covering = {}
+
+                B_prime = [node for k in B_cal_prime for node in C[k]]
+
+                # Add the nodes in V_plus to I first.
+                for z in C[V_plus] + B_prime:
+                    if z in I_covered or F[z] not in B_cal_prime:
+                        continue
+
+                    I_set.add(z)
+                    I_covered.add(z)
+                    I_covered.update(list(L[z]))
+
+                    for w in L[z]:
+                        if F[w] in A_cal_0 and N[(z, F[w])] == 1:
+                            if w not in W_covering:
+                                W_covering[w] = z
+                            else:
+                                # Found z1, z2 which have the same solo
+                                # neighbor in some W
+                                z_1 = W_covering[w]
+                                # z_2 = z
+
+                                Z = F[z_1]
+                                W = F[w]
+
+                                # shift nodes along W, V-
+                                move_witnesses(
+                                    W, V_minus, N=N, H=H, F=F, C=C, T_cal=T_cal, L=L
+                                )
+
+                                # shift nodes along V+ to Z
+                                move_witnesses(
+                                    V_plus,
+                                    Z,
+                                    N=N,
+                                    H=H,
+                                    F=F,
+                                    C=C,
+                                    T_cal=T_cal_prime,
+                                    L=L,
+                                )
+
+                                # change color of z_1 to W
+                                change_color(z_1, Z, W, N=N, H=H, F=F, C=C, L=L)
+
+                                # change color of w to some color in B_cal
+                                W_plus = next(
+                                    k for k in C if N[(w, k)] == 0 and k not in A_cal
+                                )
+                                change_color(w, W, W_plus, N=N, H=H, F=F, C=C, L=L)
+
+                                # recurse with G[B \cup W*]
+                                excluded_colors.update(
+                                    [k for k in C if k != W and k not in B_cal_prime]
+                                )
+                                procedure_P(
+                                    V_minus=W,
+                                    V_plus=W_plus,
+                                    N=N,
+                                    H=H,
+                                    C=C,
+                                    F=F,
+                                    L=L,
+                                    excluded_colors=excluded_colors,
+                                )
+
+                                made_equitable = True
+                                break
+
+                    if made_equitable:
+                        break
+                else:
+                    assert False, (
+                        "Must find a w which is the solo neighbor "
+                        "of two vertices in B_cal_prime."
+                    )
+
+            if made_equitable:
+                break
+
+
+@nx._dispatchable
+def equitable_color(G, num_colors):
+    """Provides an equitable coloring for nodes of `G`.
+
+    Attempts to color a graph using `num_colors` colors, where no neighbors of
+    a node can have same color as the node itself and the number of nodes with
+    each color differ by at most 1. `num_colors` must be greater than the
+    maximum degree of `G`. The algorithm is described in [1]_ and has
+    complexity O(num_colors * n**2).
+
+    Parameters
+    ----------
+    G : networkX graph
+       The nodes of this graph will be colored.
+
+    num_colors : number of colors to use
+       This number must be at least one more than the maximum degree of nodes
+       in the graph.
+
+    Returns
+    -------
+    A dictionary with keys representing nodes and values representing
+    corresponding coloring.
+
+    Examples
+    --------
+    >>> G = nx.cycle_graph(4)
+    >>> nx.coloring.equitable_color(G, num_colors=3)  # doctest: +SKIP
+    {0: 2, 1: 1, 2: 2, 3: 0}
+
+    Raises
+    ------
+    NetworkXAlgorithmError
+        If `num_colors` is not at least the maximum degree of the graph `G`
+
+    References
+    ----------
+    .. [1] Kierstead, H. A., Kostochka, A. V., Mydlarz, M., & Szemerédi, E.
+        (2010). A fast algorithm for equitable coloring. Combinatorica, 30(2),
+        217-224.
+    """
+
+    # Map nodes to integers for simplicity later.
+    nodes_to_int = {}
+    int_to_nodes = {}
+
+    for idx, node in enumerate(G.nodes):
+        nodes_to_int[node] = idx
+        int_to_nodes[idx] = node
+
+    G = nx.relabel_nodes(G, nodes_to_int, copy=True)
+
+    # Basic graph statistics and sanity check.
+    if len(G.nodes) > 0:
+        r_ = max(G.degree(node) for node in G.nodes)
+    else:
+        r_ = 0
+
+    if r_ >= num_colors:
+        raise nx.NetworkXAlgorithmError(
+            f"Graph has maximum degree {r_}, needs "
+            f"{r_ + 1} (> {num_colors}) colors for guaranteed coloring."
+        )
+
+    # Ensure that the number of nodes in G is a multiple of (r + 1)
+    pad_graph(G, num_colors)
+
+    # Starting the algorithm.
+    # L = {node: list(G.neighbors(node)) for node in G.nodes}
+    L_ = {node: [] for node in G.nodes}
+
+    # Arbitrary equitable allocation of colors to nodes.
+    F = {node: idx % num_colors for idx, node in enumerate(G.nodes)}
+
+    C = make_C_from_F(F)
+
+    # The neighborhood is empty initially.
+    N = make_N_from_L_C(L_, C)
+
+    # Currently all nodes witness all edges.
+    H = make_H_from_C_N(C, N)
+
+    # Start of algorithm.
+    edges_seen = set()
+
+    for u in sorted(G.nodes):
+        for v in sorted(G.neighbors(u)):
+            # Do not double count edges if (v, u) has already been seen.
+            if (v, u) in edges_seen:
+                continue
+
+            edges_seen.add((u, v))
+
+            L_[u].append(v)
+            L_[v].append(u)
+
+            N[(u, F[v])] += 1
+            N[(v, F[u])] += 1
+
+            if F[u] != F[v]:
+                # Were 'u' and 'v' witnesses for F[u] -> F[v] or F[v] -> F[u]?
+                if N[(u, F[v])] == 1:
+                    H[F[u], F[v]] -= 1  # u cannot witness an edge between F[u], F[v]
+
+                if N[(v, F[u])] == 1:
+                    H[F[v], F[u]] -= 1  # v cannot witness an edge between F[v], F[u]
+
+        if N[(u, F[u])] != 0:
+            # Find the first color where 'u' does not have any neighbors.
+            Y = next(k for k in C if N[(u, k)] == 0)
+            X = F[u]
+            change_color(u, X, Y, N=N, H=H, F=F, C=C, L=L_)
+
+            # Procedure P
+            procedure_P(V_minus=X, V_plus=Y, N=N, H=H, F=F, C=C, L=L_)
+
+    return {int_to_nodes[x]: F[x] for x in int_to_nodes}

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/coloring/greedy_coloring.py

@@ -0,0 +1,564 @@
+"""
+Greedy graph coloring using various strategies.
+"""
+import itertools
+from collections import defaultdict, deque
+
+import networkx as nx
+from networkx.utils import arbitrary_element, py_random_state
+
+__all__ = [
+    "greedy_color",
+    "strategy_connected_sequential",
+    "strategy_connected_sequential_bfs",
+    "strategy_connected_sequential_dfs",
+    "strategy_independent_set",
+    "strategy_largest_first",
+    "strategy_random_sequential",
+    "strategy_saturation_largest_first",
+    "strategy_smallest_last",
+]
+
+
+def strategy_largest_first(G, colors):
+    """Returns a list of the nodes of ``G`` in decreasing order by
+    degree.
+
+    ``G`` is a NetworkX graph. ``colors`` is ignored.
+
+    """
+    return sorted(G, key=G.degree, reverse=True)
+
+
+@py_random_state(2)
+def strategy_random_sequential(G, colors, seed=None):
+    """Returns a random permutation of the nodes of ``G`` as a list.
+
+    ``G`` is a NetworkX graph. ``colors`` is ignored.
+
+    seed : integer, random_state, or None (default)
+        Indicator of random number generation state.
+        See :ref:`Randomness<randomness>`.
+    """
+    nodes = list(G)
+    seed.shuffle(nodes)
+    return nodes
+
+
+def strategy_smallest_last(G, colors):
+    """Returns a deque of the nodes of ``G``, "smallest" last.
+
+    Specifically, the degrees of each node are tracked in a bucket queue.
+    From this, the node of minimum degree is repeatedly popped from the
+    graph, updating its neighbors' degrees.
+
+    ``G`` is a NetworkX graph. ``colors`` is ignored.
+
+    This implementation of the strategy runs in $O(n + m)$ time
+    (ignoring polylogarithmic factors), where $n$ is the number of nodes
+    and $m$ is the number of edges.
+
+    This strategy is related to :func:`strategy_independent_set`: if we
+    interpret each node removed as an independent set of size one, then
+    this strategy chooses an independent set of size one instead of a
+    maximal independent set.
+
+    """
+    H = G.copy()
+    result = deque()
+
+    # Build initial degree list (i.e. the bucket queue data structure)
+    degrees = defaultdict(set)  # set(), for fast random-access removals
+    lbound = float("inf")
+    for node, d in H.degree():
+        degrees[d].add(node)
+        lbound = min(lbound, d)  # Lower bound on min-degree.
+
+    def find_min_degree():
+        # Save time by starting the iterator at `lbound`, not 0.
+        # The value that we find will be our new `lbound`, which we set later.
+        return next(d for d in itertools.count(lbound) if d in degrees)
+
+    for _ in G:
+        # Pop a min-degree node and add it to the list.
+        min_degree = find_min_degree()
+        u = degrees[min_degree].pop()
+        if not degrees[min_degree]:  # Clean up the degree list.
+            del degrees[min_degree]
+        result.appendleft(u)
+
+        # Update degrees of removed node's neighbors.
+        for v in H[u]:
+            degree = H.degree(v)
+            degrees[degree].remove(v)
+            if not degrees[degree]:  # Clean up the degree list.
+                del degrees[degree]
+            degrees[degree - 1].add(v)
+
+        # Finally, remove the node.
+        H.remove_node(u)
+        lbound = min_degree - 1  # Subtract 1 in case of tied neighbors.
+
+    return result
+
+
+def _maximal_independent_set(G):
+    """Returns a maximal independent set of nodes in ``G`` by repeatedly
+    choosing an independent node of minimum degree (with respect to the
+    subgraph of unchosen nodes).
+
+    """
+    result = set()
+    remaining = set(G)
+    while remaining:
+        G = G.subgraph(remaining)
+        v = min(remaining, key=G.degree)
+        result.add(v)
+        remaining -= set(G[v]) | {v}
+    return result
+
+
+def strategy_independent_set(G, colors):
+    """Uses a greedy independent set removal strategy to determine the
+    colors.
+
+    This function updates ``colors`` **in-place** and return ``None``,
+    unlike the other strategy functions in this module.
+
+    This algorithm repeatedly finds and removes a maximal independent
+    set, assigning each node in the set an unused color.
+
+    ``G`` is a NetworkX graph.
+
+    This strategy is related to :func:`strategy_smallest_last`: in that
+    strategy, an independent set of size one is chosen at each step
+    instead of a maximal independent set.
+
+    """
+    remaining_nodes = set(G)
+    while len(remaining_nodes) > 0:
+        nodes = _maximal_independent_set(G.subgraph(remaining_nodes))
+        remaining_nodes -= nodes
+        yield from nodes
+
+
+def strategy_connected_sequential_bfs(G, colors):
+    """Returns an iterable over nodes in ``G`` in the order given by a
+    breadth-first traversal.
+
+    The generated sequence has the property that for each node except
+    the first, at least one neighbor appeared earlier in the sequence.
+
+    ``G`` is a NetworkX graph. ``colors`` is ignored.
+
+    """
+    return strategy_connected_sequential(G, colors, "bfs")
+
+
+def strategy_connected_sequential_dfs(G, colors):
+    """Returns an iterable over nodes in ``G`` in the order given by a
+    depth-first traversal.
+
+    The generated sequence has the property that for each node except
+    the first, at least one neighbor appeared earlier in the sequence.
+
+    ``G`` is a NetworkX graph. ``colors`` is ignored.
+
+    """
+    return strategy_connected_sequential(G, colors, "dfs")
+
+
+def strategy_connected_sequential(G, colors, traversal="bfs"):
+    """Returns an iterable over nodes in ``G`` in the order given by a
+    breadth-first or depth-first traversal.
+
+    ``traversal`` must be one of the strings ``'dfs'`` or ``'bfs'``,
+    representing depth-first traversal or breadth-first traversal,
+    respectively.
+
+    The generated sequence has the property that for each node except
+    the first, at least one neighbor appeared earlier in the sequence.
+
+    ``G`` is a NetworkX graph. ``colors`` is ignored.
+
+    """
+    if traversal == "bfs":
+        traverse = nx.bfs_edges
+    elif traversal == "dfs":
+        traverse = nx.dfs_edges
+    else:
+        raise nx.NetworkXError(
+            "Please specify one of the strings 'bfs' or"
+            " 'dfs' for connected sequential ordering"
+        )
+    for component in nx.connected_components(G):
+        source = arbitrary_element(component)
+        # Yield the source node, then all the nodes in the specified
+        # traversal order.
+        yield source
+        for _, end in traverse(G.subgraph(component), source):
+            yield end
+
+
+def strategy_saturation_largest_first(G, colors):
+    """Iterates over all the nodes of ``G`` in "saturation order" (also
+    known as "DSATUR").
+
+    ``G`` is a NetworkX graph. ``colors`` is a dictionary mapping nodes of
+    ``G`` to colors, for those nodes that have already been colored.
+
+    """
+    distinct_colors = {v: set() for v in G}
+
+    # Add the node color assignments given in colors to the
+    # distinct colors set for each neighbor of that node
+    for node, color in colors.items():
+        for neighbor in G[node]:
+            distinct_colors[neighbor].add(color)
+
+    # Check that the color assignments in colors are valid
+    # i.e. no neighboring nodes have the same color
+    if len(colors) >= 2:
+        for node, color in colors.items():
+            if color in distinct_colors[node]:
+                raise nx.NetworkXError("Neighboring nodes must have different colors")
+
+    # If 0 nodes have been colored, simply choose the node of highest degree.
+    if not colors:
+        node = max(G, key=G.degree)
+        yield node
+        # Add the color 0 to the distinct colors set for each
+        # neighbor of that node.
+        for v in G[node]:
+            distinct_colors[v].add(0)
+
+    while len(G) != len(colors):
+        # Update the distinct color sets for the neighbors.
+        for node, color in colors.items():
+            for neighbor in G[node]:
+                distinct_colors[neighbor].add(color)
+
+        # Compute the maximum saturation and the set of nodes that
+        # achieve that saturation.
+        saturation = {v: len(c) for v, c in distinct_colors.items() if v not in colors}
+        # Yield the node with the highest saturation, and break ties by
+        # degree.
+        node = max(saturation, key=lambda v: (saturation[v], G.degree(v)))
+        yield node
+
+
+#: Dictionary mapping name of a strategy as a string to the strategy function.
+STRATEGIES = {
+    "largest_first": strategy_largest_first,
+    "random_sequential": strategy_random_sequential,
+    "smallest_last": strategy_smallest_last,
+    "independent_set": strategy_independent_set,
+    "connected_sequential_bfs": strategy_connected_sequential_bfs,
+    "connected_sequential_dfs": strategy_connected_sequential_dfs,
+    "connected_sequential": strategy_connected_sequential,
+    "saturation_largest_first": strategy_saturation_largest_first,
+    "DSATUR": strategy_saturation_largest_first,
+}
+
+
+@nx._dispatchable
+def greedy_color(G, strategy="largest_first", interchange=False):
+    """Color a graph using various strategies of greedy graph coloring.
+
+    Attempts to color a graph using as few colors as possible, where no
+    neighbors of a node can have same color as the node itself. The
+    given strategy determines the order in which nodes are colored.
+
+    The strategies are described in [1]_, and smallest-last is based on
+    [2]_.
+
+    Parameters
+    ----------
+    G : NetworkX graph
+
+    strategy : string or function(G, colors)
+       A function (or a string representing a function) that provides
+       the coloring strategy, by returning nodes in the ordering they
+       should be colored. ``G`` is the graph, and ``colors`` is a
+       dictionary of the currently assigned colors, keyed by nodes. The
+       function must return an iterable over all the nodes in ``G``.
+
+       If the strategy function is an iterator generator (that is, a
+       function with ``yield`` statements), keep in mind that the
+       ``colors`` dictionary will be updated after each ``yield``, since
+       this function chooses colors greedily.
+
+       If ``strategy`` is a string, it must be one of the following,
+       each of which represents one of the built-in strategy functions.
+
+       * ``'largest_first'``
+       * ``'random_sequential'``
+       * ``'smallest_last'``
+       * ``'independent_set'``
+       * ``'connected_sequential_bfs'``
+       * ``'connected_sequential_dfs'``
+       * ``'connected_sequential'`` (alias for the previous strategy)
+       * ``'saturation_largest_first'``
+       * ``'DSATUR'`` (alias for the previous strategy)
+
+    interchange: bool
+       Will use the color interchange algorithm described by [3]_ if set
+       to ``True``.
+
+       Note that ``saturation_largest_first`` and ``independent_set``
+       do not work with interchange. Furthermore, if you use
+       interchange with your own strategy function, you cannot rely
+       on the values in the ``colors`` argument.
+
+    Returns
+    -------
+    A dictionary with keys representing nodes and values representing
+    corresponding coloring.
+
+    Examples
+    --------
+    >>> G = nx.cycle_graph(4)
+    >>> d = nx.coloring.greedy_color(G, strategy="largest_first")
+    >>> d in [{0: 0, 1: 1, 2: 0, 3: 1}, {0: 1, 1: 0, 2: 1, 3: 0}]
+    True
+
+    Raises
+    ------
+    NetworkXPointlessConcept
+        If ``strategy`` is ``saturation_largest_first`` or
+        ``independent_set`` and ``interchange`` is ``True``.
+
+    References
+    ----------
+    .. [1] Adrian Kosowski, and Krzysztof Manuszewski,
+       Classical Coloring of Graphs, Graph Colorings, 2-19, 2004.
+       ISBN 0-8218-3458-4.
+    .. [2] David W. Matula, and Leland L. Beck, "Smallest-last
+       ordering and clustering and graph coloring algorithms." *J. ACM* 30,
+       3 (July 1983), 417–427. <https://doi.org/10.1145/2402.322385>
+    .. [3] Maciej M. Sysło, Narsingh Deo, Janusz S. Kowalik,
+       Discrete Optimization Algorithms with Pascal Programs, 415-424, 1983.
+       ISBN 0-486-45353-7.
+
+    """
+    if len(G) == 0:
+        return {}
+    # Determine the strategy provided by the caller.
+    strategy = STRATEGIES.get(strategy, strategy)
+    if not callable(strategy):
+        raise nx.NetworkXError(
+            f"strategy must be callable or a valid string. {strategy} not valid."
+        )
+    # Perform some validation on the arguments before executing any
+    # strategy functions.
+    if interchange:
+        if strategy is strategy_independent_set:
+            msg = "interchange cannot be used with independent_set"
+            raise nx.NetworkXPointlessConcept(msg)
+        if strategy is strategy_saturation_largest_first:
+            msg = "interchange cannot be used with" " saturation_largest_first"
+            raise nx.NetworkXPointlessConcept(msg)
+    colors = {}
+    nodes = strategy(G, colors)
+    if interchange:
+        return _greedy_coloring_with_interchange(G, nodes)
+    for u in nodes:
+        # Set to keep track of colors of neighbors
+        nbr_colors = {colors[v] for v in G[u] if v in colors}
+        # Find the first unused color.
+        for color in itertools.count():
+            if color not in nbr_colors:
+                break
+        # Assign the new color to the current node.
+        colors[u] = color
+    return colors
+
+
+# Tools for coloring with interchanges
+class _Node:
+    __slots__ = ["node_id", "color", "adj_list", "adj_color"]
+
+    def __init__(self, node_id, n):
+        self.node_id = node_id
+        self.color = -1
+        self.adj_list = None
+        self.adj_color = [None for _ in range(n)]
+
+    def __repr__(self):
+        return (
+            f"Node_id: {self.node_id}, Color: {self.color}, "
+            f"Adj_list: ({self.adj_list}), adj_color: ({self.adj_color})"
+        )
+
+    def assign_color(self, adj_entry, color):
+        adj_entry.col_prev = None
+        adj_entry.col_next = self.adj_color[color]
+        self.adj_color[color] = adj_entry
+        if adj_entry.col_next is not None:
+            adj_entry.col_next.col_prev = adj_entry
+
+    def clear_color(self, adj_entry, color):
+        if adj_entry.col_prev is None:
+            self.adj_color[color] = adj_entry.col_next
+        else:
+            adj_entry.col_prev.col_next = adj_entry.col_next
+        if adj_entry.col_next is not None:
+            adj_entry.col_next.col_prev = adj_entry.col_prev
+
+    def iter_neighbors(self):
+        adj_node = self.adj_list
+        while adj_node is not None:
+            yield adj_node
+            adj_node = adj_node.next
+
+    def iter_neighbors_color(self, color):
+        adj_color_node = self.adj_color[color]
+        while adj_color_node is not None:
+            yield adj_color_node.node_id
+            adj_color_node = adj_color_node.col_next
+
+
+class _AdjEntry:
+    __slots__ = ["node_id", "next", "mate", "col_next", "col_prev"]
+
+    def __init__(self, node_id):
+        self.node_id = node_id
+        self.next = None
+        self.mate = None
+        self.col_next = None
+        self.col_prev = None
+
+    def __repr__(self):
+        col_next = None if self.col_next is None else self.col_next.node_id
+        col_prev = None if self.col_prev is None else self.col_prev.node_id
+        return (
+            f"Node_id: {self.node_id}, Next: ({self.next}), "
+            f"Mate: ({self.mate.node_id}), "
+            f"col_next: ({col_next}), col_prev: ({col_prev})"
+        )
+
+
+def _greedy_coloring_with_interchange(G, nodes):
+    """Return a coloring for `original_graph` using interchange approach
+
+    This procedure is an adaption of the algorithm described by [1]_,
+    and is an implementation of coloring with interchange. Please be
+    advised, that the datastructures used are rather complex because
+    they are optimized to minimize the time spent identifying
+    subcomponents of the graph, which are possible candidates for color
+    interchange.
+
+    Parameters
+    ----------
+    G : NetworkX graph
+        The graph to be colored
+
+    nodes : list
+        nodes ordered using the strategy of choice
+
+    Returns
+    -------
+    dict :
+        A dictionary keyed by node to a color value
+
+    References
+    ----------
+    .. [1] Maciej M. Syslo, Narsingh Deo, Janusz S. Kowalik,
+       Discrete Optimization Algorithms with Pascal Programs, 415-424, 1983.
+       ISBN 0-486-45353-7.
+    """
+    n = len(G)
+
+    graph = {node: _Node(node, n) for node in G}
+
+    for node1, node2 in G.edges():
+        adj_entry1 = _AdjEntry(node2)
+        adj_entry2 = _AdjEntry(node1)
+        adj_entry1.mate = adj_entry2
+        adj_entry2.mate = adj_entry1
+        node1_head = graph[node1].adj_list
+        adj_entry1.next = node1_head
+        graph[node1].adj_list = adj_entry1
+        node2_head = graph[node2].adj_list
+        adj_entry2.next = node2_head
+        graph[node2].adj_list = adj_entry2
+
+    k = 0
+    for node in nodes:
+        # Find the smallest possible, unused color
+        neighbors = graph[node].iter_neighbors()
+        col_used = {graph[adj_node.node_id].color for adj_node in neighbors}
+        col_used.discard(-1)
+        k1 = next(itertools.dropwhile(lambda x: x in col_used, itertools.count()))
+
+        # k1 is now the lowest available color
+        if k1 > k:
+            connected = True
+            visited = set()
+            col1 = -1
+            col2 = -1
+            while connected and col1 < k:
+                col1 += 1
+                neighbor_cols = graph[node].iter_neighbors_color(col1)
+                col1_adj = list(neighbor_cols)
+
+                col2 = col1
+                while connected and col2 < k:
+                    col2 += 1
+                    visited = set(col1_adj)
+                    frontier = list(col1_adj)
+                    i = 0
+                    while i < len(frontier):
+                        search_node = frontier[i]
+                        i += 1
+                        col_opp = col2 if graph[search_node].color == col1 else col1
+                        neighbor_cols = graph[search_node].iter_neighbors_color(col_opp)
+
+                        for neighbor in neighbor_cols:
+                            if neighbor not in visited:
+                                visited.add(neighbor)
+                                frontier.append(neighbor)
+
+                    # Search if node is not adj to any col2 vertex
+                    connected = (
+                        len(
+                            visited.intersection(graph[node].iter_neighbors_color(col2))
+                        )
+                        > 0
+                    )
+
+            # If connected is false then we can swap !!!
+            if not connected:
+                # Update all the nodes in the component
+                for search_node in visited:
+                    graph[search_node].color = (
+                        col2 if graph[search_node].color == col1 else col1
+                    )
+                    col2_adj = graph[search_node].adj_color[col2]
+                    graph[search_node].adj_color[col2] = graph[search_node].adj_color[
+                        col1
+                    ]
+                    graph[search_node].adj_color[col1] = col2_adj
+
+                # Update all the neighboring nodes
+                for search_node in visited:
+                    col = graph[search_node].color
+                    col_opp = col1 if col == col2 else col2
+                    for adj_node in graph[search_node].iter_neighbors():
+                        if graph[adj_node.node_id].color != col_opp:
+                            # Direct reference to entry
+                            adj_mate = adj_node.mate
+                            graph[adj_node.node_id].clear_color(adj_mate, col_opp)
+                            graph[adj_node.node_id].assign_color(adj_mate, col)
+                k1 = col1
+
+        # We can color this node color k1
+        graph[node].color = k1
+        k = max(k1, k)
+
+        # Update the neighbors of this node
+        for adj_node in graph[node].iter_neighbors():
+            adj_mate = adj_node.mate
+            graph[adj_node.node_id].assign_color(adj_mate, k1)
+
+    return {node.node_id: node.color for node in graph.values()}

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/coloring/tests/test_coloring.py

@@ -0,0 +1,865 @@
+"""Greedy coloring test suite.
+
+"""
+
+import itertools
+
+import pytest
+
+import networkx as nx
+
+is_coloring = nx.algorithms.coloring.equitable_coloring.is_coloring
+is_equitable = nx.algorithms.coloring.equitable_coloring.is_equitable
+
+
+ALL_STRATEGIES = [
+    "largest_first",
+    "random_sequential",
+    "smallest_last",
+    "independent_set",
+    "connected_sequential_bfs",
+    "connected_sequential_dfs",
+    "connected_sequential",
+    "saturation_largest_first",
+    "DSATUR",
+]
+
+# List of strategies where interchange=True results in an error
+INTERCHANGE_INVALID = ["independent_set", "saturation_largest_first", "DSATUR"]
+
+
+class TestColoring:
+    def test_basic_cases(self):
+        def check_basic_case(graph_func, n_nodes, strategy, interchange):
+            graph = graph_func()
+            coloring = nx.coloring.greedy_color(
+                graph, strategy=strategy, interchange=interchange
+            )
+            assert verify_length(coloring, n_nodes)
+            assert verify_coloring(graph, coloring)
+
+        for graph_func, n_nodes in BASIC_TEST_CASES.items():
+            for interchange in [True, False]:
+                for strategy in ALL_STRATEGIES:
+                    check_basic_case(graph_func, n_nodes, strategy, False)
+                    if strategy not in INTERCHANGE_INVALID:
+                        check_basic_case(graph_func, n_nodes, strategy, True)
+
+    def test_special_cases(self):
+        def check_special_case(strategy, graph_func, interchange, colors):
+            graph = graph_func()
+            coloring = nx.coloring.greedy_color(
+                graph, strategy=strategy, interchange=interchange
+            )
+            if not hasattr(colors, "__len__"):
+                colors = [colors]
+            assert any(verify_length(coloring, n_colors) for n_colors in colors)
+            assert verify_coloring(graph, coloring)
+
+        for strategy, arglist in SPECIAL_TEST_CASES.items():
+            for args in arglist:
+                check_special_case(strategy, args[0], args[1], args[2])
+
+    def test_interchange_invalid(self):
+        graph = one_node_graph()
+        for strategy in INTERCHANGE_INVALID:
+            pytest.raises(
+                nx.NetworkXPointlessConcept,
+                nx.coloring.greedy_color,
+                graph,
+                strategy=strategy,
+                interchange=True,
+            )
+
+    def test_bad_inputs(self):
+        graph = one_node_graph()
+        pytest.raises(
+            nx.NetworkXError,
+            nx.coloring.greedy_color,
+            graph,
+            strategy="invalid strategy",
+        )
+
+    def test_strategy_as_function(self):
+        graph = lf_shc()
+        colors_1 = nx.coloring.greedy_color(graph, "largest_first")
+        colors_2 = nx.coloring.greedy_color(graph, nx.coloring.strategy_largest_first)
+        assert colors_1 == colors_2
+
+    def test_seed_argument(self):
+        graph = lf_shc()
+        rs = nx.coloring.strategy_random_sequential
+        c1 = nx.coloring.greedy_color(graph, lambda g, c: rs(g, c, seed=1))
+        for u, v in graph.edges:
+            assert c1[u] != c1[v]
+
+    def test_is_coloring(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (1, 2)])
+        coloring = {0: 0, 1: 1, 2: 0}
+        assert is_coloring(G, coloring)
+
+        coloring[0] = 1
+        assert not is_coloring(G, coloring)
+        assert not is_equitable(G, coloring)
+
+    def test_is_equitable(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (1, 2)])
+        coloring = {0: 0, 1: 1, 2: 0}
+        assert is_equitable(G, coloring)
+
+        G.add_edges_from([(2, 3), (2, 4), (2, 5)])
+        coloring[3] = 1
+        coloring[4] = 1
+        coloring[5] = 1
+        assert is_coloring(G, coloring)
+        assert not is_equitable(G, coloring)
+
+    def test_num_colors(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (0, 3)])
+        pytest.raises(nx.NetworkXAlgorithmError, nx.coloring.equitable_color, G, 2)
+
+    def test_equitable_color(self):
+        G = nx.fast_gnp_random_graph(n=10, p=0.2, seed=42)
+        coloring = nx.coloring.equitable_color(G, max_degree(G) + 1)
+        assert is_equitable(G, coloring)
+
+    def test_equitable_color_empty(self):
+        G = nx.empty_graph()
+        coloring = nx.coloring.equitable_color(G, max_degree(G) + 1)
+        assert is_equitable(G, coloring)
+
+    def test_equitable_color_large(self):
+        G = nx.fast_gnp_random_graph(100, 0.1, seed=42)
+        coloring = nx.coloring.equitable_color(G, max_degree(G) + 1)
+        assert is_equitable(G, coloring, num_colors=max_degree(G) + 1)
+
+    def test_case_V_plus_not_in_A_cal(self):
+        # Hand crafted case to avoid the easy case.
+        L = {
+            0: [2, 5],
+            1: [3, 4],
+            2: [0, 8],
+            3: [1, 7],
+            4: [1, 6],
+            5: [0, 6],
+            6: [4, 5],
+            7: [3],
+            8: [2],
+        }
+
+        F = {
+            # Color 0
+            0: 0,
+            1: 0,
+            # Color 1
+            2: 1,
+            3: 1,
+            4: 1,
+            5: 1,
+            # Color 2
+            6: 2,
+            7: 2,
+            8: 2,
+        }
+
+        C = nx.algorithms.coloring.equitable_coloring.make_C_from_F(F)
+        N = nx.algorithms.coloring.equitable_coloring.make_N_from_L_C(L, C)
+        H = nx.algorithms.coloring.equitable_coloring.make_H_from_C_N(C, N)
+
+        nx.algorithms.coloring.equitable_coloring.procedure_P(
+            V_minus=0, V_plus=1, N=N, H=H, F=F, C=C, L=L
+        )
+        check_state(L=L, N=N, H=H, F=F, C=C)
+
+    def test_cast_no_solo(self):
+        L = {
+            0: [8, 9],
+            1: [10, 11],
+            2: [8],
+            3: [9],
+            4: [10, 11],
+            5: [8],
+            6: [9],
+            7: [10, 11],
+            8: [0, 2, 5],
+            9: [0, 3, 6],
+            10: [1, 4, 7],
+            11: [1, 4, 7],
+        }
+
+        F = {0: 0, 1: 0, 2: 2, 3: 2, 4: 2, 5: 3, 6: 3, 7: 3, 8: 1, 9: 1, 10: 1, 11: 1}
+
+        C = nx.algorithms.coloring.equitable_coloring.make_C_from_F(F)
+        N = nx.algorithms.coloring.equitable_coloring.make_N_from_L_C(L, C)
+        H = nx.algorithms.coloring.equitable_coloring.make_H_from_C_N(C, N)
+
+        nx.algorithms.coloring.equitable_coloring.procedure_P(
+            V_minus=0, V_plus=1, N=N, H=H, F=F, C=C, L=L
+        )
+        check_state(L=L, N=N, H=H, F=F, C=C)
+
+    def test_hard_prob(self):
+        # Tests for two levels of recursion.
+        num_colors, s = 5, 5
+
+        G = nx.Graph()
+        G.add_edges_from(
+            [
+                (0, 10),
+                (0, 11),
+                (0, 12),
+                (0, 23),
+                (10, 4),
+                (10, 9),
+                (10, 20),
+                (11, 4),
+                (11, 8),
+                (11, 16),
+                (12, 9),
+                (12, 22),
+                (12, 23),
+                (23, 7),
+                (1, 17),
+                (1, 18),
+                (1, 19),
+                (1, 24),
+                (17, 5),
+                (17, 13),
+                (17, 22),
+                (18, 5),
+                (19, 5),
+                (19, 6),
+                (19, 8),
+                (24, 7),
+                (24, 16),
+                (2, 4),
+                (2, 13),
+                (2, 14),
+                (2, 15),
+                (4, 6),
+                (13, 5),
+                (13, 21),
+                (14, 6),
+                (14, 15),
+                (15, 6),
+                (15, 21),
+                (3, 16),
+                (3, 20),
+                (3, 21),
+                (3, 22),
+                (16, 8),
+                (20, 8),
+                (21, 9),
+                (22, 7),
+            ]
+        )
+        F = {node: node // s for node in range(num_colors * s)}
+        F[s - 1] = num_colors - 1
+
+        params = make_params_from_graph(G=G, F=F)
+
+        nx.algorithms.coloring.equitable_coloring.procedure_P(
+            V_minus=0, V_plus=num_colors - 1, **params
+        )
+        check_state(**params)
+
+    def test_hardest_prob(self):
+        # Tests for two levels of recursion.
+        num_colors, s = 10, 4
+
+        G = nx.Graph()
+        G.add_edges_from(
+            [
+                (0, 19),
+                (0, 24),
+                (0, 29),
+                (0, 30),
+                (0, 35),
+                (19, 3),
+                (19, 7),
+                (19, 9),
+                (19, 15),
+                (19, 21),
+                (19, 24),
+                (19, 30),
+                (19, 38),
+                (24, 5),
+                (24, 11),
+                (24, 13),
+                (24, 20),
+                (24, 30),
+                (24, 37),
+                (24, 38),
+                (29, 6),
+                (29, 10),
+                (29, 13),
+                (29, 15),
+                (29, 16),
+                (29, 17),
+                (29, 20),
+                (29, 26),
+                (30, 6),
+                (30, 10),
+                (30, 15),
+                (30, 22),
+                (30, 23),
+                (30, 39),
+                (35, 6),
+                (35, 9),
+                (35, 14),
+                (35, 18),
+                (35, 22),
+                (35, 23),
+                (35, 25),
+                (35, 27),
+                (1, 20),
+                (1, 26),
+                (1, 31),
+                (1, 34),
+                (1, 38),
+                (20, 4),
+                (20, 8),
+                (20, 14),
+                (20, 18),
+                (20, 28),
+                (20, 33),
+                (26, 7),
+                (26, 10),
+                (26, 14),
+                (26, 18),
+                (26, 21),
+                (26, 32),
+                (26, 39),
+                (31, 5),
+                (31, 8),
+                (31, 13),
+                (31, 16),
+                (31, 17),
+                (31, 21),
+                (31, 25),
+                (31, 27),
+                (34, 7),
+                (34, 8),
+                (34, 13),
+                (34, 18),
+                (34, 22),
+                (34, 23),
+                (34, 25),
+                (34, 27),
+                (38, 4),
+                (38, 9),
+                (38, 12),
+                (38, 14),
+                (38, 21),
+                (38, 27),
+                (2, 3),
+                (2, 18),
+                (2, 21),
+                (2, 28),
+                (2, 32),
+                (2, 33),
+                (2, 36),
+                (2, 37),
+                (2, 39),
+                (3, 5),
+                (3, 9),
+                (3, 13),
+                (3, 22),
+                (3, 23),
+                (3, 25),
+                (3, 27),
+                (18, 6),
+                (18, 11),
+                (18, 15),
+                (18, 39),
+                (21, 4),
+                (21, 10),
+                (21, 14),
+                (21, 36),
+                (28, 6),
+                (28, 10),
+                (28, 14),
+                (28, 16),
+                (28, 17),
+                (28, 25),
+                (28, 27),
+                (32, 5),
+                (32, 10),
+                (32, 12),
+                (32, 16),
+                (32, 17),
+                (32, 22),
+                (32, 23),
+                (33, 7),
+                (33, 10),
+                (33, 12),
+                (33, 16),
+                (33, 17),
+                (33, 25),
+                (33, 27),
+                (36, 5),
+                (36, 8),
+                (36, 15),
+                (36, 16),
+                (36, 17),
+                (36, 25),
+                (36, 27),
+                (37, 5),
+                (37, 11),
+                (37, 15),
+                (37, 16),
+                (37, 17),
+                (37, 22),
+                (37, 23),
+                (39, 7),
+                (39, 8),
+                (39, 15),
+                (39, 22),
+                (39, 23),
+            ]
+        )
+        F = {node: node // s for node in range(num_colors * s)}
+        F[s - 1] = num_colors - 1  # V- = 0, V+ = num_colors - 1
+
+        params = make_params_from_graph(G=G, F=F)
+
+        nx.algorithms.coloring.equitable_coloring.procedure_P(
+            V_minus=0, V_plus=num_colors - 1, **params
+        )
+        check_state(**params)
+
+    def test_strategy_saturation_largest_first(self):
+        def color_remaining_nodes(
+            G,
+            colored_nodes,
+            full_color_assignment=None,
+            nodes_to_add_between_calls=1,
+        ):
+            color_assignments = []
+            aux_colored_nodes = colored_nodes.copy()
+
+            node_iterator = nx.algorithms.coloring.greedy_coloring.strategy_saturation_largest_first(
+                G, aux_colored_nodes
+            )
+
+            for u in node_iterator:
+                # Set to keep track of colors of neighbors
+                nbr_colors = {
+                    aux_colored_nodes[v] for v in G[u] if v in aux_colored_nodes
+                }
+                # Find the first unused color.
+                for color in itertools.count():
+                    if color not in nbr_colors:
+                        break
+                aux_colored_nodes[u] = color
+                color_assignments.append((u, color))
+
+                # Color nodes between iterations
+                for i in range(nodes_to_add_between_calls - 1):
+                    if not len(color_assignments) + len(colored_nodes) >= len(
+                        full_color_assignment
+                    ):
+                        full_color_assignment_node, color = full_color_assignment[
+                            len(color_assignments) + len(colored_nodes)
+                        ]
+
+                        # Assign the new color to the current node.
+                        aux_colored_nodes[full_color_assignment_node] = color
+                        color_assignments.append((full_color_assignment_node, color))
+
+            return color_assignments, aux_colored_nodes
+
+        for G, _, _ in SPECIAL_TEST_CASES["saturation_largest_first"]:
+            G = G()
+
+            # Check that function still works when nodes are colored between iterations
+            for nodes_to_add_between_calls in range(1, 5):
+                # Get a full color assignment, (including the order in which nodes were colored)
+                colored_nodes = {}
+                full_color_assignment, full_colored_nodes = color_remaining_nodes(
+                    G, colored_nodes
+                )
+
+                # For each node in the color assignment, add it to colored_nodes and re-run the function
+                for ind, (node, color) in enumerate(full_color_assignment):
+                    colored_nodes[node] = color
+
+                    (
+                        partial_color_assignment,
+                        partial_colored_nodes,
+                    ) = color_remaining_nodes(
+                        G,
+                        colored_nodes,
+                        full_color_assignment=full_color_assignment,
+                        nodes_to_add_between_calls=nodes_to_add_between_calls,
+                    )
+
+                    # Check that the color assignment and order of remaining nodes are the same
+                    assert full_color_assignment[ind + 1 :] == partial_color_assignment
+                    assert full_colored_nodes == partial_colored_nodes
+
+
+#  ############################  Utility functions ############################
+def verify_coloring(graph, coloring):
+    for node in graph.nodes():
+        if node not in coloring:
+            return False
+
+        color = coloring[node]
+        for neighbor in graph.neighbors(node):
+            if coloring[neighbor] == color:
+                return False
+
+    return True
+
+
+def verify_length(coloring, expected):
+    coloring = dict_to_sets(coloring)
+    return len(coloring) == expected
+
+
+def dict_to_sets(colors):
+    if len(colors) == 0:
+        return []
+
+    k = max(colors.values()) + 1
+    sets = [set() for _ in range(k)]
+
+    for node, color in colors.items():
+        sets[color].add(node)
+
+    return sets
+
+
+#  ############################  Graph Generation ############################
+
+
+def empty_graph():
+    return nx.Graph()
+
+
+def one_node_graph():
+    graph = nx.Graph()
+    graph.add_nodes_from([1])
+    return graph
+
+
+def two_node_graph():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2])
+    graph.add_edges_from([(1, 2)])
+    return graph
+
+
+def three_node_clique():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3])
+    graph.add_edges_from([(1, 2), (1, 3), (2, 3)])
+    return graph
+
+
+def disconnected():
+    graph = nx.Graph()
+    graph.add_edges_from([(1, 2), (2, 3), (4, 5), (5, 6)])
+    return graph
+
+
+def rs_shc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4])
+    graph.add_edges_from([(1, 2), (2, 3), (3, 4)])
+    return graph
+
+
+def slf_shc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6, 7])
+    graph.add_edges_from(
+        [(1, 2), (1, 5), (1, 6), (2, 3), (2, 7), (3, 4), (3, 7), (4, 5), (4, 6), (5, 6)]
+    )
+    return graph
+
+
+def slf_hc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6, 7, 8])
+    graph.add_edges_from(
+        [
+            (1, 2),
+            (1, 3),
+            (1, 4),
+            (1, 5),
+            (2, 3),
+            (2, 4),
+            (2, 6),
+            (5, 7),
+            (5, 8),
+            (6, 7),
+            (6, 8),
+            (7, 8),
+        ]
+    )
+    return graph
+
+
+def lf_shc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6])
+    graph.add_edges_from([(6, 1), (1, 4), (4, 3), (3, 2), (2, 5)])
+    return graph
+
+
+def lf_hc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6, 7])
+    graph.add_edges_from(
+        [
+            (1, 7),
+            (1, 6),
+            (1, 3),
+            (1, 4),
+            (7, 2),
+            (2, 6),
+            (2, 3),
+            (2, 5),
+            (5, 3),
+            (5, 4),
+            (4, 3),
+        ]
+    )
+    return graph
+
+
+def sl_shc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6])
+    graph.add_edges_from(
+        [(1, 2), (1, 3), (2, 3), (1, 4), (2, 5), (3, 6), (4, 5), (4, 6), (5, 6)]
+    )
+    return graph
+
+
+def sl_hc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6, 7, 8])
+    graph.add_edges_from(
+        [
+            (1, 2),
+            (1, 3),
+            (1, 5),
+            (1, 7),
+            (2, 3),
+            (2, 4),
+            (2, 8),
+            (8, 4),
+            (8, 6),
+            (8, 7),
+            (7, 5),
+            (7, 6),
+            (3, 4),
+            (4, 6),
+            (6, 5),
+            (5, 3),
+        ]
+    )
+    return graph
+
+
+def gis_shc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4])
+    graph.add_edges_from([(1, 2), (2, 3), (3, 4)])
+    return graph
+
+
+def gis_hc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6])
+    graph.add_edges_from([(1, 5), (2, 5), (3, 6), (4, 6), (5, 6)])
+    return graph
+
+
+def cs_shc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5])
+    graph.add_edges_from([(1, 2), (1, 5), (2, 3), (2, 4), (2, 5), (3, 4), (4, 5)])
+    return graph
+
+
+def rsi_shc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6])
+    graph.add_edges_from(
+        [(1, 2), (1, 5), (1, 6), (2, 3), (3, 4), (4, 5), (4, 6), (5, 6)]
+    )
+    return graph
+
+
+def lfi_shc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6, 7])
+    graph.add_edges_from(
+        [(1, 2), (1, 5), (1, 6), (2, 3), (2, 7), (3, 4), (3, 7), (4, 5), (4, 6), (5, 6)]
+    )
+    return graph
+
+
+def lfi_hc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6, 7, 8, 9])
+    graph.add_edges_from(
+        [
+            (1, 2),
+            (1, 5),
+            (1, 6),
+            (1, 7),
+            (2, 3),
+            (2, 8),
+            (2, 9),
+            (3, 4),
+            (3, 8),
+            (3, 9),
+            (4, 5),
+            (4, 6),
+            (4, 7),
+            (5, 6),
+        ]
+    )
+    return graph
+
+
+def sli_shc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6, 7])
+    graph.add_edges_from(
+        [
+            (1, 2),
+            (1, 3),
+            (1, 5),
+            (1, 7),
+            (2, 3),
+            (2, 6),
+            (3, 4),
+            (4, 5),
+            (4, 6),
+            (5, 7),
+            (6, 7),
+        ]
+    )
+    return graph
+
+
+def sli_hc():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3, 4, 5, 6, 7, 8, 9])
+    graph.add_edges_from(
+        [
+            (1, 2),
+            (1, 3),
+            (1, 4),
+            (1, 5),
+            (2, 3),
+            (2, 7),
+            (2, 8),
+            (2, 9),
+            (3, 6),
+            (3, 7),
+            (3, 9),
+            (4, 5),
+            (4, 6),
+            (4, 8),
+            (4, 9),
+            (5, 6),
+            (5, 7),
+            (5, 8),
+            (6, 7),
+            (6, 9),
+            (7, 8),
+            (8, 9),
+        ]
+    )
+    return graph
+
+
+# --------------------------------------------------------------------------
+# Basic tests for all strategies
+# For each basic graph function, specify the number of expected colors.
+BASIC_TEST_CASES = {
+    empty_graph: 0,
+    one_node_graph: 1,
+    two_node_graph: 2,
+    disconnected: 2,
+    three_node_clique: 3,
+}
+
+
+# --------------------------------------------------------------------------
+# Special test cases. Each strategy has a list of tuples of the form
+# (graph function, interchange, valid # of colors)
+SPECIAL_TEST_CASES = {
+    "random_sequential": [
+        (rs_shc, False, (2, 3)),
+        (rs_shc, True, 2),
+        (rsi_shc, True, (3, 4)),
+    ],
+    "saturation_largest_first": [(slf_shc, False, (3, 4)), (slf_hc, False, 4)],
+    "largest_first": [
+        (lf_shc, False, (2, 3)),
+        (lf_hc, False, 4),
+        (lf_shc, True, 2),
+        (lf_hc, True, 3),
+        (lfi_shc, True, (3, 4)),
+        (lfi_hc, True, 4),
+    ],
+    "smallest_last": [
+        (sl_shc, False, (3, 4)),
+        (sl_hc, False, 5),
+        (sl_shc, True, 3),
+        (sl_hc, True, 4),
+        (sli_shc, True, (3, 4)),
+        (sli_hc, True, 5),
+    ],
+    "independent_set": [(gis_shc, False, (2, 3)), (gis_hc, False, 3)],
+    "connected_sequential": [(cs_shc, False, (3, 4)), (cs_shc, True, 3)],
+    "connected_sequential_dfs": [(cs_shc, False, (3, 4))],
+}
+
+
+# --------------------------------------------------------------------------
+# Helper functions to test
+# (graph function, interchange, valid # of colors)
+
+
+def check_state(L, N, H, F, C):
+    s = len(C[0])
+    num_colors = len(C.keys())
+
+    assert all(u in L[v] for u in L for v in L[u])
+    assert all(F[u] != F[v] for u in L for v in L[u])
+    assert all(len(L[u]) < num_colors for u in L)
+    assert all(len(C[x]) == s for x in C)
+    assert all(H[(c1, c2)] >= 0 for c1 in C for c2 in C)
+    assert all(N[(u, F[u])] == 0 for u in F)
+
+
+def max_degree(G):
+    """Get the maximum degree of any node in G."""
+    return max(G.degree(node) for node in G.nodes) if len(G.nodes) > 0 else 0
+
+
+def make_params_from_graph(G, F):
+    """Returns {N, L, H, C} from the given graph."""
+    num_nodes = len(G)
+    L = {u: [] for u in range(num_nodes)}
+    for u, v in G.edges:
+        L[u].append(v)
+        L[v].append(u)
+
+    C = nx.algorithms.coloring.equitable_coloring.make_C_from_F(F)
+    N = nx.algorithms.coloring.equitable_coloring.make_N_from_L_C(L, C)
+    H = nx.algorithms.coloring.equitable_coloring.make_H_from_C_N(C, N)
+
+    return {"N": N, "F": F, "C": C, "H": H, "L": L}

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/community/tests/test_kernighan_lin.py

@@ -0,0 +1,91 @@
+"""Unit tests for the :mod:`networkx.algorithms.community.kernighan_lin`
+module.
+"""
+from itertools import permutations
+
+import pytest
+
+import networkx as nx
+from networkx.algorithms.community import kernighan_lin_bisection
+
+
+def assert_partition_equal(x, y):
+    assert set(map(frozenset, x)) == set(map(frozenset, y))
+
+
+def test_partition():
+    G = nx.barbell_graph(3, 0)
+    C = kernighan_lin_bisection(G)
+    assert_partition_equal(C, [{0, 1, 2}, {3, 4, 5}])
+
+
+def test_partition_argument():
+    G = nx.barbell_graph(3, 0)
+    partition = [{0, 1, 2}, {3, 4, 5}]
+    C = kernighan_lin_bisection(G, partition)
+    assert_partition_equal(C, partition)
+
+
+def test_partition_argument_non_integer_nodes():
+    G = nx.Graph([("A", "B"), ("A", "C"), ("B", "C"), ("C", "D")])
+    partition = ({"A", "B"}, {"C", "D"})
+    C = kernighan_lin_bisection(G, partition)
+    assert_partition_equal(C, partition)
+
+
+def test_seed_argument():
+    G = nx.barbell_graph(3, 0)
+    C = kernighan_lin_bisection(G, seed=1)
+    assert_partition_equal(C, [{0, 1, 2}, {3, 4, 5}])
+
+
+def test_non_disjoint_partition():
+    with pytest.raises(nx.NetworkXError):
+        G = nx.barbell_graph(3, 0)
+        partition = ({0, 1, 2}, {2, 3, 4, 5})
+        kernighan_lin_bisection(G, partition)
+
+
+def test_too_many_blocks():
+    with pytest.raises(nx.NetworkXError):
+        G = nx.barbell_graph(3, 0)
+        partition = ({0, 1}, {2}, {3, 4, 5})
+        kernighan_lin_bisection(G, partition)
+
+
+def test_multigraph():
+    G = nx.cycle_graph(4)
+    M = nx.MultiGraph(G.edges())
+    M.add_edges_from(G.edges())
+    M.remove_edge(1, 2)
+    for labels in permutations(range(4)):
+        mapping = dict(zip(M, labels))
+        A, B = kernighan_lin_bisection(nx.relabel_nodes(M, mapping), seed=0)
+        assert_partition_equal(
+            [A, B], [{mapping[0], mapping[1]}, {mapping[2], mapping[3]}]
+        )
+
+
+def test_max_iter_argument():
+    G = nx.Graph(
+        [
+            ("A", "B", {"weight": 1}),
+            ("A", "C", {"weight": 2}),
+            ("A", "D", {"weight": 3}),
+            ("A", "E", {"weight": 2}),
+            ("A", "F", {"weight": 4}),
+            ("B", "C", {"weight": 1}),
+            ("B", "D", {"weight": 4}),
+            ("B", "E", {"weight": 2}),
+            ("B", "F", {"weight": 1}),
+            ("C", "D", {"weight": 3}),
+            ("C", "E", {"weight": 2}),
+            ("C", "F", {"weight": 1}),
+            ("D", "E", {"weight": 4}),
+            ("D", "F", {"weight": 3}),
+            ("E", "F", {"weight": 2}),
+        ]
+    )
+    partition = ({"A", "B", "C"}, {"D", "E", "F"})
+    C = kernighan_lin_bisection(G, partition, max_iter=1)
+    assert_partition_equal(C, ({"A", "F", "C"}, {"D", "E", "B"}))

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/community/tests/test_quality.py

@@ -0,0 +1,138 @@
+"""Unit tests for the :mod:`networkx.algorithms.community.quality`
+module.
+
+"""
+import pytest
+
+import networkx as nx
+from networkx import barbell_graph
+from networkx.algorithms.community import modularity, partition_quality
+from networkx.algorithms.community.quality import inter_community_edges
+
+
+class TestPerformance:
+    """Unit tests for the :func:`performance` function."""
+
+    def test_bad_partition(self):
+        """Tests that a poor partition has a low performance measure."""
+        G = barbell_graph(3, 0)
+        partition = [{0, 1, 4}, {2, 3, 5}]
+        assert 8 / 15 == pytest.approx(partition_quality(G, partition)[1], abs=1e-7)
+
+    def test_good_partition(self):
+        """Tests that a good partition has a high performance measure."""
+        G = barbell_graph(3, 0)
+        partition = [{0, 1, 2}, {3, 4, 5}]
+        assert 14 / 15 == pytest.approx(partition_quality(G, partition)[1], abs=1e-7)
+
+
+class TestCoverage:
+    """Unit tests for the :func:`coverage` function."""
+
+    def test_bad_partition(self):
+        """Tests that a poor partition has a low coverage measure."""
+        G = barbell_graph(3, 0)
+        partition = [{0, 1, 4}, {2, 3, 5}]
+        assert 3 / 7 == pytest.approx(partition_quality(G, partition)[0], abs=1e-7)
+
+    def test_good_partition(self):
+        """Tests that a good partition has a high coverage measure."""
+        G = barbell_graph(3, 0)
+        partition = [{0, 1, 2}, {3, 4, 5}]
+        assert 6 / 7 == pytest.approx(partition_quality(G, partition)[0], abs=1e-7)
+
+
+def test_modularity():
+    G = nx.barbell_graph(3, 0)
+    C = [{0, 1, 4}, {2, 3, 5}]
+    assert (-16 / (14**2)) == pytest.approx(modularity(G, C), abs=1e-7)
+    C = [{0, 1, 2}, {3, 4, 5}]
+    assert (35 * 2) / (14**2) == pytest.approx(modularity(G, C), abs=1e-7)
+
+    n = 1000
+    G = nx.erdos_renyi_graph(n, 0.09, seed=42, directed=True)
+    C = [set(range(n // 2)), set(range(n // 2, n))]
+    assert 0.00017154251389292754 == pytest.approx(modularity(G, C), abs=1e-7)
+
+    G = nx.margulis_gabber_galil_graph(10)
+    mid_value = G.number_of_nodes() // 2
+    nodes = list(G.nodes)
+    C = [set(nodes[:mid_value]), set(nodes[mid_value:])]
+    assert 0.13 == pytest.approx(modularity(G, C), abs=1e-7)
+
+    G = nx.DiGraph()
+    G.add_edges_from([(2, 1), (2, 3), (3, 4)])
+    C = [{1, 2}, {3, 4}]
+    assert 2 / 9 == pytest.approx(modularity(G, C), abs=1e-7)
+
+
+def test_modularity_resolution():
+    G = nx.barbell_graph(3, 0)
+    C = [{0, 1, 4}, {2, 3, 5}]
+    assert modularity(G, C) == pytest.approx(3 / 7 - 100 / 14**2)
+    gamma = 2
+    result = modularity(G, C, resolution=gamma)
+    assert result == pytest.approx(3 / 7 - gamma * 100 / 14**2)
+    gamma = 0.2
+    result = modularity(G, C, resolution=gamma)
+    assert result == pytest.approx(3 / 7 - gamma * 100 / 14**2)
+
+    C = [{0, 1, 2}, {3, 4, 5}]
+    assert modularity(G, C) == pytest.approx(6 / 7 - 98 / 14**2)
+    gamma = 2
+    result = modularity(G, C, resolution=gamma)
+    assert result == pytest.approx(6 / 7 - gamma * 98 / 14**2)
+    gamma = 0.2
+    result = modularity(G, C, resolution=gamma)
+    assert result == pytest.approx(6 / 7 - gamma * 98 / 14**2)
+
+    G = nx.barbell_graph(5, 3)
+    C = [frozenset(range(5)), frozenset(range(8, 13)), frozenset(range(5, 8))]
+    gamma = 1
+    result = modularity(G, C, resolution=gamma)
+    # This C is maximal for gamma=1:  modularity = 0.518229
+    assert result == pytest.approx((22 / 24) - gamma * (918 / (48**2)))
+    gamma = 2
+    result = modularity(G, C, resolution=gamma)
+    assert result == pytest.approx((22 / 24) - gamma * (918 / (48**2)))
+    gamma = 0.2
+    result = modularity(G, C, resolution=gamma)
+    assert result == pytest.approx((22 / 24) - gamma * (918 / (48**2)))
+
+    C = [{0, 1, 2, 3}, {9, 10, 11, 12}, {5, 6, 7}, {4}, {8}]
+    gamma = 1
+    result = modularity(G, C, resolution=gamma)
+    assert result == pytest.approx((14 / 24) - gamma * (598 / (48**2)))
+    gamma = 2.5
+    result = modularity(G, C, resolution=gamma)
+    # This C is maximal for gamma=2.5:  modularity = -0.06553819
+    assert result == pytest.approx((14 / 24) - gamma * (598 / (48**2)))
+    gamma = 0.2
+    result = modularity(G, C, resolution=gamma)
+    assert result == pytest.approx((14 / 24) - gamma * (598 / (48**2)))
+
+    C = [frozenset(range(8)), frozenset(range(8, 13))]
+    gamma = 1
+    result = modularity(G, C, resolution=gamma)
+    assert result == pytest.approx((23 / 24) - gamma * (1170 / (48**2)))
+    gamma = 2
+    result = modularity(G, C, resolution=gamma)
+    assert result == pytest.approx((23 / 24) - gamma * (1170 / (48**2)))
+    gamma = 0.3
+    result = modularity(G, C, resolution=gamma)
+    # This C is maximal for gamma=0.3:  modularity = 0.805990
+    assert result == pytest.approx((23 / 24) - gamma * (1170 / (48**2)))
+
+
+def test_inter_community_edges_with_digraphs():
+    G = nx.complete_graph(2, create_using=nx.DiGraph())
+    partition = [{0}, {1}]
+    assert inter_community_edges(G, partition) == 2
+
+    G = nx.complete_graph(10, create_using=nx.DiGraph())
+    partition = [{0}, {1, 2}, {3, 4, 5}, {6, 7, 8, 9}]
+    assert inter_community_edges(G, partition) == 70
+
+    G = nx.cycle_graph(4, create_using=nx.DiGraph())
+    partition = [{0, 1}, {2, 3}]
+    assert inter_community_edges(G, partition) == 2

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/community/tests/test_utils.py

@@ -0,0 +1,28 @@
+"""Unit tests for the :mod:`networkx.algorithms.community.utils` module.
+
+"""
+
+import networkx as nx
+
+
+def test_is_partition():
+    G = nx.empty_graph(3)
+    assert nx.community.is_partition(G, [{0, 1}, {2}])
+    assert nx.community.is_partition(G, ({0, 1}, {2}))
+    assert nx.community.is_partition(G, ([0, 1], [2]))
+    assert nx.community.is_partition(G, [[0, 1], [2]])
+
+
+def test_not_covering():
+    G = nx.empty_graph(3)
+    assert not nx.community.is_partition(G, [{0}, {1}])
+
+
+def test_not_disjoint():
+    G = nx.empty_graph(3)
+    assert not nx.community.is_partition(G, [{0, 1}, {1, 2}])
+
+
+def test_not_node():
+    G = nx.empty_graph(3)
+    assert not nx.community.is_partition(G, [{0, 1}, {3}])

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_asteroidal.py

@@ -0,0 +1,23 @@
+import networkx as nx
+
+
+def test_is_at_free():
+    is_at_free = nx.asteroidal.is_at_free
+
+    cycle = nx.cycle_graph(6)
+    assert not is_at_free(cycle)
+
+    path = nx.path_graph(6)
+    assert is_at_free(path)
+
+    small_graph = nx.complete_graph(2)
+    assert is_at_free(small_graph)
+
+    petersen = nx.petersen_graph()
+    assert not is_at_free(petersen)
+
+    clique = nx.complete_graph(6)
+    assert is_at_free(clique)
+
+    line_clique = nx.line_graph(clique)
+    assert not is_at_free(line_clique)

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_boundary.py

@@ -0,0 +1,154 @@
+"""Unit tests for the :mod:`networkx.algorithms.boundary` module."""
+
+from itertools import combinations
+
+import pytest
+
+import networkx as nx
+from networkx import convert_node_labels_to_integers as cnlti
+from networkx.utils import edges_equal
+
+
+class TestNodeBoundary:
+    """Unit tests for the :func:`~networkx.node_boundary` function."""
+
+    def test_null_graph(self):
+        """Tests that the null graph has empty node boundaries."""
+        null = nx.null_graph()
+        assert nx.node_boundary(null, []) == set()
+        assert nx.node_boundary(null, [], []) == set()
+        assert nx.node_boundary(null, [1, 2, 3]) == set()
+        assert nx.node_boundary(null, [1, 2, 3], [4, 5, 6]) == set()
+        assert nx.node_boundary(null, [1, 2, 3], [3, 4, 5]) == set()
+
+    def test_path_graph(self):
+        P10 = cnlti(nx.path_graph(10), first_label=1)
+        assert nx.node_boundary(P10, []) == set()
+        assert nx.node_boundary(P10, [], []) == set()
+        assert nx.node_boundary(P10, [1, 2, 3]) == {4}
+        assert nx.node_boundary(P10, [4, 5, 6]) == {3, 7}
+        assert nx.node_boundary(P10, [3, 4, 5, 6, 7]) == {2, 8}
+        assert nx.node_boundary(P10, [8, 9, 10]) == {7}
+        assert nx.node_boundary(P10, [4, 5, 6], [9, 10]) == set()
+
+    def test_complete_graph(self):
+        K10 = cnlti(nx.complete_graph(10), first_label=1)
+        assert nx.node_boundary(K10, []) == set()
+        assert nx.node_boundary(K10, [], []) == set()
+        assert nx.node_boundary(K10, [1, 2, 3]) == {4, 5, 6, 7, 8, 9, 10}
+        assert nx.node_boundary(K10, [4, 5, 6]) == {1, 2, 3, 7, 8, 9, 10}
+        assert nx.node_boundary(K10, [3, 4, 5, 6, 7]) == {1, 2, 8, 9, 10}
+        assert nx.node_boundary(K10, [4, 5, 6], []) == set()
+        assert nx.node_boundary(K10, K10) == set()
+        assert nx.node_boundary(K10, [1, 2, 3], [3, 4, 5]) == {4, 5}
+
+    def test_petersen(self):
+        """Check boundaries in the petersen graph
+
+        cheeger(G,k)=min(|bdy(S)|/|S| for |S|=k, 0<k<=|V(G)|/2)
+
+        """
+
+        def cheeger(G, k):
+            return min(len(nx.node_boundary(G, nn)) / k for nn in combinations(G, k))
+
+        P = nx.petersen_graph()
+        assert cheeger(P, 1) == pytest.approx(3.00, abs=1e-2)
+        assert cheeger(P, 2) == pytest.approx(2.00, abs=1e-2)
+        assert cheeger(P, 3) == pytest.approx(1.67, abs=1e-2)
+        assert cheeger(P, 4) == pytest.approx(1.00, abs=1e-2)
+        assert cheeger(P, 5) == pytest.approx(0.80, abs=1e-2)
+
+    def test_directed(self):
+        """Tests the node boundary of a directed graph."""
+        G = nx.DiGraph([(0, 1), (1, 2), (2, 3), (3, 4), (4, 0)])
+        S = {0, 1}
+        boundary = nx.node_boundary(G, S)
+        expected = {2}
+        assert boundary == expected
+
+    def test_multigraph(self):
+        """Tests the node boundary of a multigraph."""
+        G = nx.MultiGraph(list(nx.cycle_graph(5).edges()) * 2)
+        S = {0, 1}
+        boundary = nx.node_boundary(G, S)
+        expected = {2, 4}
+        assert boundary == expected
+
+    def test_multidigraph(self):
+        """Tests the edge boundary of a multidigraph."""
+        edges = [(0, 1), (1, 2), (2, 3), (3, 4), (4, 0)]
+        G = nx.MultiDiGraph(edges * 2)
+        S = {0, 1}
+        boundary = nx.node_boundary(G, S)
+        expected = {2}
+        assert boundary == expected
+
+
+class TestEdgeBoundary:
+    """Unit tests for the :func:`~networkx.edge_boundary` function."""
+
+    def test_null_graph(self):
+        null = nx.null_graph()
+        assert list(nx.edge_boundary(null, [])) == []
+        assert list(nx.edge_boundary(null, [], [])) == []
+        assert list(nx.edge_boundary(null, [1, 2, 3])) == []
+        assert list(nx.edge_boundary(null, [1, 2, 3], [4, 5, 6])) == []
+        assert list(nx.edge_boundary(null, [1, 2, 3], [3, 4, 5])) == []
+
+    def test_path_graph(self):
+        P10 = cnlti(nx.path_graph(10), first_label=1)
+        assert list(nx.edge_boundary(P10, [])) == []
+        assert list(nx.edge_boundary(P10, [], [])) == []
+        assert list(nx.edge_boundary(P10, [1, 2, 3])) == [(3, 4)]
+        assert sorted(nx.edge_boundary(P10, [4, 5, 6])) == [(4, 3), (6, 7)]
+        assert sorted(nx.edge_boundary(P10, [3, 4, 5, 6, 7])) == [(3, 2), (7, 8)]
+        assert list(nx.edge_boundary(P10, [8, 9, 10])) == [(8, 7)]
+        assert sorted(nx.edge_boundary(P10, [4, 5, 6], [9, 10])) == []
+        assert list(nx.edge_boundary(P10, [1, 2, 3], [3, 4, 5])) == [(2, 3), (3, 4)]
+
+    def test_complete_graph(self):
+        K10 = cnlti(nx.complete_graph(10), first_label=1)
+
+        def ilen(iterable):
+            return sum(1 for i in iterable)
+
+        assert list(nx.edge_boundary(K10, [])) == []
+        assert list(nx.edge_boundary(K10, [], [])) == []
+        assert ilen(nx.edge_boundary(K10, [1, 2, 3])) == 21
+        assert ilen(nx.edge_boundary(K10, [4, 5, 6, 7])) == 24
+        assert ilen(nx.edge_boundary(K10, [3, 4, 5, 6, 7])) == 25
+        assert ilen(nx.edge_boundary(K10, [8, 9, 10])) == 21
+        assert edges_equal(
+            nx.edge_boundary(K10, [4, 5, 6], [9, 10]),
+            [(4, 9), (4, 10), (5, 9), (5, 10), (6, 9), (6, 10)],
+        )
+        assert edges_equal(
+            nx.edge_boundary(K10, [1, 2, 3], [3, 4, 5]),
+            [(1, 3), (1, 4), (1, 5), (2, 3), (2, 4), (2, 5), (3, 4), (3, 5)],
+        )
+
+    def test_directed(self):
+        """Tests the edge boundary of a directed graph."""
+        G = nx.DiGraph([(0, 1), (1, 2), (2, 3), (3, 4), (4, 0)])
+        S = {0, 1}
+        boundary = list(nx.edge_boundary(G, S))
+        expected = [(1, 2)]
+        assert boundary == expected
+
+    def test_multigraph(self):
+        """Tests the edge boundary of a multigraph."""
+        G = nx.MultiGraph(list(nx.cycle_graph(5).edges()) * 2)
+        S = {0, 1}
+        boundary = list(nx.edge_boundary(G, S))
+        expected = [(0, 4), (0, 4), (1, 2), (1, 2)]
+        assert boundary == expected
+
+    def test_multidigraph(self):
+        """Tests the edge boundary of a multidigraph."""
+        edges = [(0, 1), (1, 2), (2, 3), (3, 4), (4, 0)]
+        G = nx.MultiDiGraph(edges * 2)
+        S = {0, 1}
+        boundary = list(nx.edge_boundary(G, S))
+        expected = [(1, 2), (1, 2)]
+        assert boundary == expected

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_bridges.py

@@ -0,0 +1,144 @@
+"""Unit tests for bridge-finding algorithms."""
+
+import pytest
+
+import networkx as nx
+
+
+class TestBridges:
+    """Unit tests for the bridge-finding function."""
+
+    def test_single_bridge(self):
+        edges = [
+            # DFS tree edges.
+            (1, 2),
+            (2, 3),
+            (3, 4),
+            (3, 5),
+            (5, 6),
+            (6, 7),
+            (7, 8),
+            (5, 9),
+            (9, 10),
+            # Nontree edges.
+            (1, 3),
+            (1, 4),
+            (2, 5),
+            (5, 10),
+            (6, 8),
+        ]
+        G = nx.Graph(edges)
+        source = 1
+        bridges = list(nx.bridges(G, source))
+        assert bridges == [(5, 6)]
+
+    def test_barbell_graph(self):
+        # The (3, 0) barbell graph has two triangles joined by a single edge.
+        G = nx.barbell_graph(3, 0)
+        source = 0
+        bridges = list(nx.bridges(G, source))
+        assert bridges == [(2, 3)]
+
+    def test_multiedge_bridge(self):
+        edges = [
+            (0, 1),
+            (0, 2),
+            (1, 2),
+            (1, 2),
+            (2, 3),
+            (3, 4),
+            (3, 4),
+        ]
+        G = nx.MultiGraph(edges)
+        assert list(nx.bridges(G)) == [(2, 3)]
+
+
+class TestHasBridges:
+    """Unit tests for the has bridges function."""
+
+    def test_single_bridge(self):
+        edges = [
+            # DFS tree edges.
+            (1, 2),
+            (2, 3),
+            (3, 4),
+            (3, 5),
+            (5, 6),  # The only bridge edge
+            (6, 7),
+            (7, 8),
+            (5, 9),
+            (9, 10),
+            # Nontree edges.
+            (1, 3),
+            (1, 4),
+            (2, 5),
+            (5, 10),
+            (6, 8),
+        ]
+        G = nx.Graph(edges)
+        assert nx.has_bridges(G)  # Default root
+        assert nx.has_bridges(G, root=1)  # arbitrary root in G
+
+    def test_has_bridges_raises_root_not_in_G(self):
+        G = nx.Graph()
+        G.add_nodes_from([1, 2, 3])
+        with pytest.raises(nx.NodeNotFound):
+            nx.has_bridges(G, root=6)
+
+    def test_multiedge_bridge(self):
+        edges = [
+            (0, 1),
+            (0, 2),
+            (1, 2),
+            (1, 2),
+            (2, 3),
+            (3, 4),
+            (3, 4),
+        ]
+        G = nx.MultiGraph(edges)
+        assert nx.has_bridges(G)
+        # Make every edge a multiedge
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        assert not nx.has_bridges(G)
+
+    def test_bridges_multiple_components(self):
+        G = nx.Graph()
+        nx.add_path(G, [0, 1, 2])  # One connected component
+        nx.add_path(G, [4, 5, 6])  # Another connected component
+        assert list(nx.bridges(G, root=4)) == [(4, 5), (5, 6)]
+
+
+class TestLocalBridges:
+    """Unit tests for the local_bridge function."""
+
+    @classmethod
+    def setup_class(cls):
+        cls.BB = nx.barbell_graph(4, 0)
+        cls.square = nx.cycle_graph(4)
+        cls.tri = nx.cycle_graph(3)
+
+    def test_nospan(self):
+        expected = {(3, 4), (4, 3)}
+        assert next(nx.local_bridges(self.BB, with_span=False)) in expected
+        assert set(nx.local_bridges(self.square, with_span=False)) == self.square.edges
+        assert list(nx.local_bridges(self.tri, with_span=False)) == []
+
+    def test_no_weight(self):
+        inf = float("inf")
+        expected = {(3, 4, inf), (4, 3, inf)}
+        assert next(nx.local_bridges(self.BB)) in expected
+        expected = {(u, v, 3) for u, v in self.square.edges}
+        assert set(nx.local_bridges(self.square)) == expected
+        assert list(nx.local_bridges(self.tri)) == []
+
+    def test_weight(self):
+        inf = float("inf")
+        G = self.square.copy()
+
+        G.edges[1, 2]["weight"] = 2
+        expected = {(u, v, 5 - wt) for u, v, wt in G.edges(data="weight", default=1)}
+        assert set(nx.local_bridges(G, weight="weight")) == expected
+
+        expected = {(u, v, 6) for u, v in G.edges}
+        lb = nx.local_bridges(G, weight=lambda u, v, d: 2)
+        assert set(lb) == expected

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_broadcasting.py

@@ -0,0 +1,81 @@
+"""Unit tests for the broadcasting module."""
+import math
+
+import networkx as nx
+
+
+def test_example_tree_broadcast():
+    """
+    Test the BROADCAST algorithm on the example in the paper titled: "Information Dissemination in Trees"
+    """
+    edge_list = [
+        (0, 1),
+        (1, 2),
+        (2, 7),
+        (3, 4),
+        (5, 4),
+        (4, 7),
+        (6, 7),
+        (7, 9),
+        (8, 9),
+        (9, 13),
+        (13, 14),
+        (14, 15),
+        (14, 16),
+        (14, 17),
+        (13, 11),
+        (11, 10),
+        (11, 12),
+        (13, 18),
+        (18, 19),
+        (18, 20),
+    ]
+    G = nx.Graph(edge_list)
+    b_T, b_C = nx.tree_broadcast_center(G)
+    assert b_T == 6
+    assert b_C == {13, 9}
+    # test broadcast time from specific vertex
+    assert nx.tree_broadcast_time(G, 17) == 8
+    assert nx.tree_broadcast_time(G, 3) == 9
+    # test broadcast time of entire tree
+    assert nx.tree_broadcast_time(G) == 10
+
+
+def test_path_broadcast():
+    for i in range(2, 12):
+        G = nx.path_graph(i)
+        b_T, b_C = nx.tree_broadcast_center(G)
+        assert b_T == math.ceil(i / 2)
+        assert b_C == {
+            math.ceil(i / 2),
+            math.floor(i / 2),
+            math.ceil(i / 2 - 1),
+            math.floor(i / 2 - 1),
+        }
+        assert nx.tree_broadcast_time(G) == i - 1
+
+
+def test_empty_graph_broadcast():
+    H = nx.empty_graph(1)
+    b_T, b_C = nx.tree_broadcast_center(H)
+    assert b_T == 0
+    assert b_C == {0}
+    assert nx.tree_broadcast_time(H) == 0
+
+
+def test_star_broadcast():
+    for i in range(4, 12):
+        G = nx.star_graph(i)
+        b_T, b_C = nx.tree_broadcast_center(G)
+        assert b_T == i
+        assert b_C == set(G.nodes())
+        assert nx.tree_broadcast_time(G) == b_T
+
+
+def test_binomial_tree_broadcast():
+    for i in range(2, 8):
+        G = nx.binomial_tree(i)
+        b_T, b_C = nx.tree_broadcast_center(G)
+        assert b_T == i
+        assert b_C == {0, 2 ** (i - 1)}
+        assert nx.tree_broadcast_time(G) == 2 * i - 1

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_chordal.py

@@ -0,0 +1,129 @@
+import pytest
+
+import networkx as nx
+
+
+class TestMCS:
+    @classmethod
+    def setup_class(cls):
+        # simple graph
+        connected_chordal_G = nx.Graph()
+        connected_chordal_G.add_edges_from(
+            [
+                (1, 2),
+                (1, 3),
+                (2, 3),
+                (2, 4),
+                (3, 4),
+                (3, 5),
+                (3, 6),
+                (4, 5),
+                (4, 6),
+                (5, 6),
+            ]
+        )
+        cls.connected_chordal_G = connected_chordal_G
+
+        chordal_G = nx.Graph()
+        chordal_G.add_edges_from(
+            [
+                (1, 2),
+                (1, 3),
+                (2, 3),
+                (2, 4),
+                (3, 4),
+                (3, 5),
+                (3, 6),
+                (4, 5),
+                (4, 6),
+                (5, 6),
+                (7, 8),
+            ]
+        )
+        chordal_G.add_node(9)
+        cls.chordal_G = chordal_G
+
+        non_chordal_G = nx.Graph()
+        non_chordal_G.add_edges_from([(1, 2), (1, 3), (2, 4), (2, 5), (3, 4), (3, 5)])
+        cls.non_chordal_G = non_chordal_G
+
+        self_loop_G = nx.Graph()
+        self_loop_G.add_edges_from([(1, 1)])
+        cls.self_loop_G = self_loop_G
+
+    @pytest.mark.parametrize("G", (nx.DiGraph(), nx.MultiGraph(), nx.MultiDiGraph()))
+    def test_is_chordal_not_implemented(self, G):
+        with pytest.raises(nx.NetworkXNotImplemented):
+            nx.is_chordal(G)
+
+    def test_is_chordal(self):
+        assert not nx.is_chordal(self.non_chordal_G)
+        assert nx.is_chordal(self.chordal_G)
+        assert nx.is_chordal(self.connected_chordal_G)
+        assert nx.is_chordal(nx.Graph())
+        assert nx.is_chordal(nx.complete_graph(3))
+        assert nx.is_chordal(nx.cycle_graph(3))
+        assert not nx.is_chordal(nx.cycle_graph(5))
+        assert nx.is_chordal(self.self_loop_G)
+
+    def test_induced_nodes(self):
+        G = nx.generators.classic.path_graph(10)
+        Induced_nodes = nx.find_induced_nodes(G, 1, 9, 2)
+        assert Induced_nodes == {1, 2, 3, 4, 5, 6, 7, 8, 9}
+        pytest.raises(
+            nx.NetworkXTreewidthBoundExceeded, nx.find_induced_nodes, G, 1, 9, 1
+        )
+        Induced_nodes = nx.find_induced_nodes(self.chordal_G, 1, 6)
+        assert Induced_nodes == {1, 2, 4, 6}
+        pytest.raises(nx.NetworkXError, nx.find_induced_nodes, self.non_chordal_G, 1, 5)
+
+    def test_graph_treewidth(self):
+        with pytest.raises(nx.NetworkXError, match="Input graph is not chordal"):
+            nx.chordal_graph_treewidth(self.non_chordal_G)
+
+    def test_chordal_find_cliques(self):
+        cliques = {
+            frozenset([9]),
+            frozenset([7, 8]),
+            frozenset([1, 2, 3]),
+            frozenset([2, 3, 4]),
+            frozenset([3, 4, 5, 6]),
+        }
+        assert set(nx.chordal_graph_cliques(self.chordal_G)) == cliques
+        with pytest.raises(nx.NetworkXError, match="Input graph is not chordal"):
+            set(nx.chordal_graph_cliques(self.non_chordal_G))
+        with pytest.raises(nx.NetworkXError, match="Input graph is not chordal"):
+            set(nx.chordal_graph_cliques(self.self_loop_G))
+
+    def test_chordal_find_cliques_path(self):
+        G = nx.path_graph(10)
+        cliqueset = nx.chordal_graph_cliques(G)
+        for u, v in G.edges():
+            assert frozenset([u, v]) in cliqueset or frozenset([v, u]) in cliqueset
+
+    def test_chordal_find_cliquesCC(self):
+        cliques = {frozenset([1, 2, 3]), frozenset([2, 3, 4]), frozenset([3, 4, 5, 6])}
+        cgc = nx.chordal_graph_cliques
+        assert set(cgc(self.connected_chordal_G)) == cliques
+
+    def test_complete_to_chordal_graph(self):
+        fgrg = nx.fast_gnp_random_graph
+        test_graphs = [
+            nx.barbell_graph(6, 2),
+            nx.cycle_graph(15),
+            nx.wheel_graph(20),
+            nx.grid_graph([10, 4]),
+            nx.ladder_graph(15),
+            nx.star_graph(5),
+            nx.bull_graph(),
+            fgrg(20, 0.3, seed=1),
+        ]
+        for G in test_graphs:
+            H, a = nx.complete_to_chordal_graph(G)
+            assert nx.is_chordal(H)
+            assert len(a) == H.number_of_nodes()
+            if nx.is_chordal(G):
+                assert G.number_of_edges() == H.number_of_edges()
+                assert set(a.values()) == {0}
+            else:
+                assert len(set(a.values())) == H.number_of_nodes()

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_cluster.py

@@ -0,0 +1,549 @@
+import pytest
+
+import networkx as nx
+
+
+class TestTriangles:
+    def test_empty(self):
+        G = nx.Graph()
+        assert list(nx.triangles(G).values()) == []
+
+    def test_path(self):
+        G = nx.path_graph(10)
+        assert list(nx.triangles(G).values()) == [0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
+        assert nx.triangles(G) == {
+            0: 0,
+            1: 0,
+            2: 0,
+            3: 0,
+            4: 0,
+            5: 0,
+            6: 0,
+            7: 0,
+            8: 0,
+            9: 0,
+        }
+
+    def test_cubical(self):
+        G = nx.cubical_graph()
+        assert list(nx.triangles(G).values()) == [0, 0, 0, 0, 0, 0, 0, 0]
+        assert nx.triangles(G, 1) == 0
+        assert list(nx.triangles(G, [1, 2]).values()) == [0, 0]
+        assert nx.triangles(G, 1) == 0
+        assert nx.triangles(G, [1, 2]) == {1: 0, 2: 0}
+
+    def test_k5(self):
+        G = nx.complete_graph(5)
+        assert list(nx.triangles(G).values()) == [6, 6, 6, 6, 6]
+        assert sum(nx.triangles(G).values()) / 3 == 10
+        assert nx.triangles(G, 1) == 6
+        G.remove_edge(1, 2)
+        assert list(nx.triangles(G).values()) == [5, 3, 3, 5, 5]
+        assert nx.triangles(G, 1) == 3
+        G.add_edge(3, 3)  # ignore self-edges
+        assert list(nx.triangles(G).values()) == [5, 3, 3, 5, 5]
+        assert nx.triangles(G, 3) == 5
+
+
+class TestDirectedClustering:
+    def test_clustering(self):
+        G = nx.DiGraph()
+        assert list(nx.clustering(G).values()) == []
+        assert nx.clustering(G) == {}
+
+    def test_path(self):
+        G = nx.path_graph(10, create_using=nx.DiGraph())
+        assert list(nx.clustering(G).values()) == [
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+        ]
+        assert nx.clustering(G) == {
+            0: 0,
+            1: 0,
+            2: 0,
+            3: 0,
+            4: 0,
+            5: 0,
+            6: 0,
+            7: 0,
+            8: 0,
+            9: 0,
+        }
+        assert nx.clustering(G, 0) == 0
+
+    def test_k5(self):
+        G = nx.complete_graph(5, create_using=nx.DiGraph())
+        assert list(nx.clustering(G).values()) == [1, 1, 1, 1, 1]
+        assert nx.average_clustering(G) == 1
+        G.remove_edge(1, 2)
+        assert list(nx.clustering(G).values()) == [
+            11 / 12,
+            1,
+            1,
+            11 / 12,
+            11 / 12,
+        ]
+        assert nx.clustering(G, [1, 4]) == {1: 1, 4: 11 / 12}
+        G.remove_edge(2, 1)
+        assert list(nx.clustering(G).values()) == [
+            5 / 6,
+            1,
+            1,
+            5 / 6,
+            5 / 6,
+        ]
+        assert nx.clustering(G, [1, 4]) == {1: 1, 4: 0.83333333333333337}
+        assert nx.clustering(G, 4) == 5 / 6
+
+    def test_triangle_and_edge(self):
+        G = nx.cycle_graph(3, create_using=nx.DiGraph())
+        G.add_edge(0, 4)
+        assert nx.clustering(G)[0] == 1 / 6
+
+
+class TestDirectedWeightedClustering:
+    @classmethod
+    def setup_class(cls):
+        global np
+        np = pytest.importorskip("numpy")
+
+    def test_clustering(self):
+        G = nx.DiGraph()
+        assert list(nx.clustering(G, weight="weight").values()) == []
+        assert nx.clustering(G) == {}
+
+    def test_path(self):
+        G = nx.path_graph(10, create_using=nx.DiGraph())
+        assert list(nx.clustering(G, weight="weight").values()) == [
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+        ]
+        assert nx.clustering(G, weight="weight") == {
+            0: 0,
+            1: 0,
+            2: 0,
+            3: 0,
+            4: 0,
+            5: 0,
+            6: 0,
+            7: 0,
+            8: 0,
+            9: 0,
+        }
+
+    def test_k5(self):
+        G = nx.complete_graph(5, create_using=nx.DiGraph())
+        assert list(nx.clustering(G, weight="weight").values()) == [1, 1, 1, 1, 1]
+        assert nx.average_clustering(G, weight="weight") == 1
+        G.remove_edge(1, 2)
+        assert list(nx.clustering(G, weight="weight").values()) == [
+            11 / 12,
+            1,
+            1,
+            11 / 12,
+            11 / 12,
+        ]
+        assert nx.clustering(G, [1, 4], weight="weight") == {1: 1, 4: 11 / 12}
+        G.remove_edge(2, 1)
+        assert list(nx.clustering(G, weight="weight").values()) == [
+            5 / 6,
+            1,
+            1,
+            5 / 6,
+            5 / 6,
+        ]
+        assert nx.clustering(G, [1, 4], weight="weight") == {
+            1: 1,
+            4: 0.83333333333333337,
+        }
+
+    def test_triangle_and_edge(self):
+        G = nx.cycle_graph(3, create_using=nx.DiGraph())
+        G.add_edge(0, 4, weight=2)
+        assert nx.clustering(G)[0] == 1 / 6
+        # Relaxed comparisons to allow graphblas-algorithms to pass tests
+        np.testing.assert_allclose(nx.clustering(G, weight="weight")[0], 1 / 12)
+        np.testing.assert_allclose(nx.clustering(G, 0, weight="weight"), 1 / 12)
+
+
+class TestWeightedClustering:
+    @classmethod
+    def setup_class(cls):
+        global np
+        np = pytest.importorskip("numpy")
+
+    def test_clustering(self):
+        G = nx.Graph()
+        assert list(nx.clustering(G, weight="weight").values()) == []
+        assert nx.clustering(G) == {}
+
+    def test_path(self):
+        G = nx.path_graph(10)
+        assert list(nx.clustering(G, weight="weight").values()) == [
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+        ]
+        assert nx.clustering(G, weight="weight") == {
+            0: 0,
+            1: 0,
+            2: 0,
+            3: 0,
+            4: 0,
+            5: 0,
+            6: 0,
+            7: 0,
+            8: 0,
+            9: 0,
+        }
+
+    def test_cubical(self):
+        G = nx.cubical_graph()
+        assert list(nx.clustering(G, weight="weight").values()) == [
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+        ]
+        assert nx.clustering(G, 1) == 0
+        assert list(nx.clustering(G, [1, 2], weight="weight").values()) == [0, 0]
+        assert nx.clustering(G, 1, weight="weight") == 0
+        assert nx.clustering(G, [1, 2], weight="weight") == {1: 0, 2: 0}
+
+    def test_k5(self):
+        G = nx.complete_graph(5)
+        assert list(nx.clustering(G, weight="weight").values()) == [1, 1, 1, 1, 1]
+        assert nx.average_clustering(G, weight="weight") == 1
+        G.remove_edge(1, 2)
+        assert list(nx.clustering(G, weight="weight").values()) == [
+            5 / 6,
+            1,
+            1,
+            5 / 6,
+            5 / 6,
+        ]
+        assert nx.clustering(G, [1, 4], weight="weight") == {
+            1: 1,
+            4: 0.83333333333333337,
+        }
+
+    def test_triangle_and_edge(self):
+        G = nx.cycle_graph(3)
+        G.add_edge(0, 4, weight=2)
+        assert nx.clustering(G)[0] == 1 / 3
+        np.testing.assert_allclose(nx.clustering(G, weight="weight")[0], 1 / 6)
+        np.testing.assert_allclose(nx.clustering(G, 0, weight="weight"), 1 / 6)
+
+    def test_triangle_and_signed_edge(self):
+        G = nx.cycle_graph(3)
+        G.add_edge(0, 1, weight=-1)
+        G.add_edge(3, 0, weight=0)
+        assert nx.clustering(G)[0] == 1 / 3
+        assert nx.clustering(G, weight="weight")[0] == -1 / 3
+
+
+class TestClustering:
+    @classmethod
+    def setup_class(cls):
+        pytest.importorskip("numpy")
+
+    def test_clustering(self):
+        G = nx.Graph()
+        assert list(nx.clustering(G).values()) == []
+        assert nx.clustering(G) == {}
+
+    def test_path(self):
+        G = nx.path_graph(10)
+        assert list(nx.clustering(G).values()) == [
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+        ]
+        assert nx.clustering(G) == {
+            0: 0,
+            1: 0,
+            2: 0,
+            3: 0,
+            4: 0,
+            5: 0,
+            6: 0,
+            7: 0,
+            8: 0,
+            9: 0,
+        }
+
+    def test_cubical(self):
+        G = nx.cubical_graph()
+        assert list(nx.clustering(G).values()) == [0, 0, 0, 0, 0, 0, 0, 0]
+        assert nx.clustering(G, 1) == 0
+        assert list(nx.clustering(G, [1, 2]).values()) == [0, 0]
+        assert nx.clustering(G, 1) == 0
+        assert nx.clustering(G, [1, 2]) == {1: 0, 2: 0}
+
+    def test_k5(self):
+        G = nx.complete_graph(5)
+        assert list(nx.clustering(G).values()) == [1, 1, 1, 1, 1]
+        assert nx.average_clustering(G) == 1
+        G.remove_edge(1, 2)
+        assert list(nx.clustering(G).values()) == [
+            5 / 6,
+            1,
+            1,
+            5 / 6,
+            5 / 6,
+        ]
+        assert nx.clustering(G, [1, 4]) == {1: 1, 4: 0.83333333333333337}
+
+    def test_k5_signed(self):
+        G = nx.complete_graph(5)
+        assert list(nx.clustering(G).values()) == [1, 1, 1, 1, 1]
+        assert nx.average_clustering(G) == 1
+        G.remove_edge(1, 2)
+        G.add_edge(0, 1, weight=-1)
+        assert list(nx.clustering(G, weight="weight").values()) == [
+            1 / 6,
+            -1 / 3,
+            1,
+            3 / 6,
+            3 / 6,
+        ]
+
+
+class TestTransitivity:
+    def test_transitivity(self):
+        G = nx.Graph()
+        assert nx.transitivity(G) == 0
+
+    def test_path(self):
+        G = nx.path_graph(10)
+        assert nx.transitivity(G) == 0
+
+    def test_cubical(self):
+        G = nx.cubical_graph()
+        assert nx.transitivity(G) == 0
+
+    def test_k5(self):
+        G = nx.complete_graph(5)
+        assert nx.transitivity(G) == 1
+        G.remove_edge(1, 2)
+        assert nx.transitivity(G) == 0.875
+
+
+class TestSquareClustering:
+    def test_clustering(self):
+        G = nx.Graph()
+        assert list(nx.square_clustering(G).values()) == []
+        assert nx.square_clustering(G) == {}
+
+    def test_path(self):
+        G = nx.path_graph(10)
+        assert list(nx.square_clustering(G).values()) == [
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+            0,
+        ]
+        assert nx.square_clustering(G) == {
+            0: 0,
+            1: 0,
+            2: 0,
+            3: 0,
+            4: 0,
+            5: 0,
+            6: 0,
+            7: 0,
+            8: 0,
+            9: 0,
+        }
+
+    def test_cubical(self):
+        G = nx.cubical_graph()
+        assert list(nx.square_clustering(G).values()) == [
+            1 / 3,
+            1 / 3,
+            1 / 3,
+            1 / 3,
+            1 / 3,
+            1 / 3,
+            1 / 3,
+            1 / 3,
+        ]
+        assert list(nx.square_clustering(G, [1, 2]).values()) == [1 / 3, 1 / 3]
+        assert nx.square_clustering(G, [1])[1] == 1 / 3
+        assert nx.square_clustering(G, 1) == 1 / 3
+        assert nx.square_clustering(G, [1, 2]) == {1: 1 / 3, 2: 1 / 3}
+
+    def test_k5(self):
+        G = nx.complete_graph(5)
+        assert list(nx.square_clustering(G).values()) == [1, 1, 1, 1, 1]
+
+    def test_bipartite_k5(self):
+        G = nx.complete_bipartite_graph(5, 5)
+        assert list(nx.square_clustering(G).values()) == [1, 1, 1, 1, 1, 1, 1, 1, 1, 1]
+
+    def test_lind_square_clustering(self):
+        """Test C4 for figure 1 Lind et al (2005)"""
+        G = nx.Graph(
+            [
+                (1, 2),
+                (1, 3),
+                (1, 6),
+                (1, 7),
+                (2, 4),
+                (2, 5),
+                (3, 4),
+                (3, 5),
+                (6, 7),
+                (7, 8),
+                (6, 8),
+                (7, 9),
+                (7, 10),
+                (6, 11),
+                (6, 12),
+                (2, 13),
+                (2, 14),
+                (3, 15),
+                (3, 16),
+            ]
+        )
+        G1 = G.subgraph([1, 2, 3, 4, 5, 13, 14, 15, 16])
+        G2 = G.subgraph([1, 6, 7, 8, 9, 10, 11, 12])
+        assert nx.square_clustering(G, [1])[1] == 3 / 43
+        assert nx.square_clustering(G1, [1])[1] == 2 / 6
+        assert nx.square_clustering(G2, [1])[1] == 1 / 5
+
+    def test_peng_square_clustering(self):
+        """Test eq2 for figure 1 Peng et al (2008)"""
+        G = nx.Graph([(1, 2), (1, 3), (2, 4), (3, 4), (3, 5), (3, 6)])
+        assert nx.square_clustering(G, [1])[1] == 1 / 3
+
+    def test_self_loops_square_clustering(self):
+        G = nx.path_graph(5)
+        assert nx.square_clustering(G) == {0: 0, 1: 0.0, 2: 0.0, 3: 0.0, 4: 0}
+        G.add_edges_from([(0, 0), (1, 1), (2, 2)])
+        assert nx.square_clustering(G) == {0: 1, 1: 0.5, 2: 0.2, 3: 0.0, 4: 0}
+
+
+class TestAverageClustering:
+    @classmethod
+    def setup_class(cls):
+        pytest.importorskip("numpy")
+
+    def test_empty(self):
+        G = nx.Graph()
+        with pytest.raises(ZeroDivisionError):
+            nx.average_clustering(G)
+
+    def test_average_clustering(self):
+        G = nx.cycle_graph(3)
+        G.add_edge(2, 3)
+        assert nx.average_clustering(G) == (1 + 1 + 1 / 3) / 4
+        assert nx.average_clustering(G, count_zeros=True) == (1 + 1 + 1 / 3) / 4
+        assert nx.average_clustering(G, count_zeros=False) == (1 + 1 + 1 / 3) / 3
+        assert nx.average_clustering(G, [1, 2, 3]) == (1 + 1 / 3) / 3
+        assert nx.average_clustering(G, [1, 2, 3], count_zeros=True) == (1 + 1 / 3) / 3
+        assert nx.average_clustering(G, [1, 2, 3], count_zeros=False) == (1 + 1 / 3) / 2
+
+    def test_average_clustering_signed(self):
+        G = nx.cycle_graph(3)
+        G.add_edge(2, 3)
+        G.add_edge(0, 1, weight=-1)
+        assert nx.average_clustering(G, weight="weight") == (-1 - 1 - 1 / 3) / 4
+        assert (
+            nx.average_clustering(G, weight="weight", count_zeros=True)
+            == (-1 - 1 - 1 / 3) / 4
+        )
+        assert (
+            nx.average_clustering(G, weight="weight", count_zeros=False)
+            == (-1 - 1 - 1 / 3) / 3
+        )
+
+
+class TestDirectedAverageClustering:
+    @classmethod
+    def setup_class(cls):
+        pytest.importorskip("numpy")
+
+    def test_empty(self):
+        G = nx.DiGraph()
+        with pytest.raises(ZeroDivisionError):
+            nx.average_clustering(G)
+
+    def test_average_clustering(self):
+        G = nx.cycle_graph(3, create_using=nx.DiGraph())
+        G.add_edge(2, 3)
+        assert nx.average_clustering(G) == (1 + 1 + 1 / 3) / 8
+        assert nx.average_clustering(G, count_zeros=True) == (1 + 1 + 1 / 3) / 8
+        assert nx.average_clustering(G, count_zeros=False) == (1 + 1 + 1 / 3) / 6
+        assert nx.average_clustering(G, [1, 2, 3]) == (1 + 1 / 3) / 6
+        assert nx.average_clustering(G, [1, 2, 3], count_zeros=True) == (1 + 1 / 3) / 6
+        assert nx.average_clustering(G, [1, 2, 3], count_zeros=False) == (1 + 1 / 3) / 4
+
+
+class TestGeneralizedDegree:
+    def test_generalized_degree(self):
+        G = nx.Graph()
+        assert nx.generalized_degree(G) == {}
+
+    def test_path(self):
+        G = nx.path_graph(5)
+        assert nx.generalized_degree(G, 0) == {0: 1}
+        assert nx.generalized_degree(G, 1) == {0: 2}
+
+    def test_cubical(self):
+        G = nx.cubical_graph()
+        assert nx.generalized_degree(G, 0) == {0: 3}
+
+    def test_k5(self):
+        G = nx.complete_graph(5)
+        assert nx.generalized_degree(G, 0) == {3: 4}
+        G.remove_edge(0, 1)
+        assert nx.generalized_degree(G, 0) == {2: 3}
+        assert nx.generalized_degree(G, [1, 2]) == {1: {2: 3}, 2: {2: 2, 3: 2}}
+        assert nx.generalized_degree(G) == {
+            0: {2: 3},
+            1: {2: 3},
+            2: {2: 2, 3: 2},
+            3: {2: 2, 3: 2},
+            4: {2: 2, 3: 2},
+        }

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_communicability.py

@@ -0,0 +1,80 @@
+from collections import defaultdict
+
+import pytest
+
+pytest.importorskip("numpy")
+pytest.importorskip("scipy")
+
+import networkx as nx
+from networkx.algorithms.communicability_alg import communicability, communicability_exp
+
+
+class TestCommunicability:
+    def test_communicability(self):
+        answer = {
+            0: {0: 1.5430806348152435, 1: 1.1752011936438012},
+            1: {0: 1.1752011936438012, 1: 1.5430806348152435},
+        }
+        #        answer={(0, 0): 1.5430806348152435,
+        #                (0, 1): 1.1752011936438012,
+        #                (1, 0): 1.1752011936438012,
+        #                (1, 1): 1.5430806348152435}
+
+        result = communicability(nx.path_graph(2))
+        for k1, val in result.items():
+            for k2 in val:
+                assert answer[k1][k2] == pytest.approx(result[k1][k2], abs=1e-7)
+
+    def test_communicability2(self):
+        answer_orig = {
+            ("1", "1"): 1.6445956054135658,
+            ("1", "Albert"): 0.7430186221096251,
+            ("1", "Aric"): 0.7430186221096251,
+            ("1", "Dan"): 1.6208126320442937,
+            ("1", "Franck"): 0.42639707170035257,
+            ("Albert", "1"): 0.7430186221096251,
+            ("Albert", "Albert"): 2.4368257358712189,
+            ("Albert", "Aric"): 1.4368257358712191,
+            ("Albert", "Dan"): 2.0472097037446453,
+            ("Albert", "Franck"): 1.8340111678944691,
+            ("Aric", "1"): 0.7430186221096251,
+            ("Aric", "Albert"): 1.4368257358712191,
+            ("Aric", "Aric"): 2.4368257358712193,
+            ("Aric", "Dan"): 2.0472097037446457,
+            ("Aric", "Franck"): 1.8340111678944691,
+            ("Dan", "1"): 1.6208126320442937,
+            ("Dan", "Albert"): 2.0472097037446453,
+            ("Dan", "Aric"): 2.0472097037446457,
+            ("Dan", "Dan"): 3.1306328496328168,
+            ("Dan", "Franck"): 1.4860372442192515,
+            ("Franck", "1"): 0.42639707170035257,
+            ("Franck", "Albert"): 1.8340111678944691,
+            ("Franck", "Aric"): 1.8340111678944691,
+            ("Franck", "Dan"): 1.4860372442192515,
+            ("Franck", "Franck"): 2.3876142275231915,
+        }
+
+        answer = defaultdict(dict)
+        for (k1, k2), v in answer_orig.items():
+            answer[k1][k2] = v
+
+        G1 = nx.Graph(
+            [
+                ("Franck", "Aric"),
+                ("Aric", "Dan"),
+                ("Dan", "Albert"),
+                ("Albert", "Franck"),
+                ("Dan", "1"),
+                ("Franck", "Albert"),
+            ]
+        )
+
+        result = communicability(G1)
+        for k1, val in result.items():
+            for k2 in val:
+                assert answer[k1][k2] == pytest.approx(result[k1][k2], abs=1e-7)
+
+        result = communicability_exp(G1)
+        for k1, val in result.items():
+            for k2 in val:
+                assert answer[k1][k2] == pytest.approx(result[k1][k2], abs=1e-7)

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_covering.py

@@ -0,0 +1,85 @@
+import pytest
+
+import networkx as nx
+
+
+class TestMinEdgeCover:
+    """Tests for :func:`networkx.algorithms.min_edge_cover`"""
+
+    def test_empty_graph(self):
+        G = nx.Graph()
+        assert nx.min_edge_cover(G) == set()
+
+    def test_graph_with_loop(self):
+        G = nx.Graph()
+        G.add_edge(0, 0)
+        assert nx.min_edge_cover(G) == {(0, 0)}
+
+    def test_graph_with_isolated_v(self):
+        G = nx.Graph()
+        G.add_node(1)
+        with pytest.raises(
+            nx.NetworkXException,
+            match="Graph has a node with no edge incident on it, so no edge cover exists.",
+        ):
+            nx.min_edge_cover(G)
+
+    def test_graph_single_edge(self):
+        G = nx.Graph([(0, 1)])
+        assert nx.min_edge_cover(G) in ({(0, 1)}, {(1, 0)})
+
+    def test_graph_two_edge_path(self):
+        G = nx.path_graph(3)
+        min_cover = nx.min_edge_cover(G)
+        assert len(min_cover) == 2
+        for u, v in G.edges:
+            assert (u, v) in min_cover or (v, u) in min_cover
+
+    def test_bipartite_explicit(self):
+        G = nx.Graph()
+        G.add_nodes_from([1, 2, 3, 4], bipartite=0)
+        G.add_nodes_from(["a", "b", "c"], bipartite=1)
+        G.add_edges_from([(1, "a"), (1, "b"), (2, "b"), (2, "c"), (3, "c"), (4, "a")])
+        # Use bipartite method by prescribing the algorithm
+        min_cover = nx.min_edge_cover(
+            G, nx.algorithms.bipartite.matching.eppstein_matching
+        )
+        assert nx.is_edge_cover(G, min_cover)
+        assert len(min_cover) == 8
+        # Use the default method which is not specialized for bipartite
+        min_cover2 = nx.min_edge_cover(G)
+        assert nx.is_edge_cover(G, min_cover2)
+        assert len(min_cover2) == 4
+
+    def test_complete_graph_even(self):
+        G = nx.complete_graph(10)
+        min_cover = nx.min_edge_cover(G)
+        assert nx.is_edge_cover(G, min_cover)
+        assert len(min_cover) == 5
+
+    def test_complete_graph_odd(self):
+        G = nx.complete_graph(11)
+        min_cover = nx.min_edge_cover(G)
+        assert nx.is_edge_cover(G, min_cover)
+        assert len(min_cover) == 6
+
+
+class TestIsEdgeCover:
+    """Tests for :func:`networkx.algorithms.is_edge_cover`"""
+
+    def test_empty_graph(self):
+        G = nx.Graph()
+        assert nx.is_edge_cover(G, set())
+
+    def test_graph_with_loop(self):
+        G = nx.Graph()
+        G.add_edge(1, 1)
+        assert nx.is_edge_cover(G, {(1, 1)})
+
+    def test_graph_single_edge(self):
+        G = nx.Graph()
+        G.add_edge(0, 1)
+        assert nx.is_edge_cover(G, {(0, 0), (1, 1)})
+        assert nx.is_edge_cover(G, {(0, 1), (1, 0)})
+        assert nx.is_edge_cover(G, {(0, 1)})
+        assert not nx.is_edge_cover(G, {(0, 0)})

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_cuts.py

@@ -0,0 +1,172 @@
+"""Unit tests for the :mod:`networkx.algorithms.cuts` module."""
+
+
+import networkx as nx
+
+
+class TestCutSize:
+    """Unit tests for the :func:`~networkx.cut_size` function."""
+
+    def test_symmetric(self):
+        """Tests that the cut size is symmetric."""
+        G = nx.barbell_graph(3, 0)
+        S = {0, 1, 4}
+        T = {2, 3, 5}
+        assert nx.cut_size(G, S, T) == 4
+        assert nx.cut_size(G, T, S) == 4
+
+    def test_single_edge(self):
+        """Tests for a cut of a single edge."""
+        G = nx.barbell_graph(3, 0)
+        S = {0, 1, 2}
+        T = {3, 4, 5}
+        assert nx.cut_size(G, S, T) == 1
+        assert nx.cut_size(G, T, S) == 1
+
+    def test_directed(self):
+        """Tests that each directed edge is counted once in the cut."""
+        G = nx.barbell_graph(3, 0).to_directed()
+        S = {0, 1, 2}
+        T = {3, 4, 5}
+        assert nx.cut_size(G, S, T) == 2
+        assert nx.cut_size(G, T, S) == 2
+
+    def test_directed_symmetric(self):
+        """Tests that a cut in a directed graph is symmetric."""
+        G = nx.barbell_graph(3, 0).to_directed()
+        S = {0, 1, 4}
+        T = {2, 3, 5}
+        assert nx.cut_size(G, S, T) == 8
+        assert nx.cut_size(G, T, S) == 8
+
+    def test_multigraph(self):
+        """Tests that parallel edges are each counted for a cut."""
+        G = nx.MultiGraph(["ab", "ab"])
+        assert nx.cut_size(G, {"a"}, {"b"}) == 2
+
+
+class TestVolume:
+    """Unit tests for the :func:`~networkx.volume` function."""
+
+    def test_graph(self):
+        G = nx.cycle_graph(4)
+        assert nx.volume(G, {0, 1}) == 4
+
+    def test_digraph(self):
+        G = nx.DiGraph([(0, 1), (1, 2), (2, 3), (3, 0)])
+        assert nx.volume(G, {0, 1}) == 2
+
+    def test_multigraph(self):
+        edges = list(nx.cycle_graph(4).edges())
+        G = nx.MultiGraph(edges * 2)
+        assert nx.volume(G, {0, 1}) == 8
+
+    def test_multidigraph(self):
+        edges = [(0, 1), (1, 2), (2, 3), (3, 0)]
+        G = nx.MultiDiGraph(edges * 2)
+        assert nx.volume(G, {0, 1}) == 4
+
+    def test_barbell(self):
+        G = nx.barbell_graph(3, 0)
+        assert nx.volume(G, {0, 1, 2}) == 7
+        assert nx.volume(G, {3, 4, 5}) == 7
+
+
+class TestNormalizedCutSize:
+    """Unit tests for the :func:`~networkx.normalized_cut_size` function."""
+
+    def test_graph(self):
+        G = nx.path_graph(4)
+        S = {1, 2}
+        T = set(G) - S
+        size = nx.normalized_cut_size(G, S, T)
+        # The cut looks like this: o-{-o--o-}-o
+        expected = 2 * ((1 / 4) + (1 / 2))
+        assert expected == size
+        # Test with no input T
+        assert expected == nx.normalized_cut_size(G, S)
+
+    def test_directed(self):
+        G = nx.DiGraph([(0, 1), (1, 2), (2, 3)])
+        S = {1, 2}
+        T = set(G) - S
+        size = nx.normalized_cut_size(G, S, T)
+        # The cut looks like this: o-{->o-->o-}->o
+        expected = 2 * ((1 / 2) + (1 / 1))
+        assert expected == size
+        # Test with no input T
+        assert expected == nx.normalized_cut_size(G, S)
+
+
+class TestConductance:
+    """Unit tests for the :func:`~networkx.conductance` function."""
+
+    def test_graph(self):
+        G = nx.barbell_graph(5, 0)
+        # Consider the singleton sets containing the "bridge" nodes.
+        # There is only one cut edge, and each set has volume five.
+        S = {4}
+        T = {5}
+        conductance = nx.conductance(G, S, T)
+        expected = 1 / 5
+        assert expected == conductance
+        # Test with no input T
+        G2 = nx.barbell_graph(3, 0)
+        # There is only one cut edge, and each set has volume seven.
+        S2 = {0, 1, 2}
+        assert nx.conductance(G2, S2) == 1 / 7
+
+
+class TestEdgeExpansion:
+    """Unit tests for the :func:`~networkx.edge_expansion` function."""
+
+    def test_graph(self):
+        G = nx.barbell_graph(5, 0)
+        S = set(range(5))
+        T = set(G) - S
+        expansion = nx.edge_expansion(G, S, T)
+        expected = 1 / 5
+        assert expected == expansion
+        # Test with no input T
+        assert expected == nx.edge_expansion(G, S)
+
+
+class TestNodeExpansion:
+    """Unit tests for the :func:`~networkx.node_expansion` function."""
+
+    def test_graph(self):
+        G = nx.path_graph(8)
+        S = {3, 4, 5}
+        expansion = nx.node_expansion(G, S)
+        # The neighborhood of S has cardinality five, and S has
+        # cardinality three.
+        expected = 5 / 3
+        assert expected == expansion
+
+
+class TestBoundaryExpansion:
+    """Unit tests for the :func:`~networkx.boundary_expansion` function."""
+
+    def test_graph(self):
+        G = nx.complete_graph(10)
+        S = set(range(4))
+        expansion = nx.boundary_expansion(G, S)
+        # The node boundary of S has cardinality six, and S has
+        # cardinality three.
+        expected = 6 / 4
+        assert expected == expansion
+
+
+class TestMixingExpansion:
+    """Unit tests for the :func:`~networkx.mixing_expansion` function."""
+
+    def test_graph(self):
+        G = nx.barbell_graph(5, 0)
+        S = set(range(5))
+        T = set(G) - S
+        expansion = nx.mixing_expansion(G, S, T)
+        # There is one cut edge, and the total number of edges in the
+        # graph is twice the total number of edges in a clique of size
+        # five, plus one more for the bridge.
+        expected = 1 / (2 * (5 * 4 + 1))
+        assert expected == expansion

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_cycles.py

@@ -0,0 +1,974 @@
+from itertools import chain, islice, tee
+from math import inf
+from random import shuffle
+
+import pytest
+
+import networkx as nx
+from networkx.algorithms.traversal.edgedfs import FORWARD, REVERSE
+
+
+def check_independent(basis):
+    if len(basis) == 0:
+        return
+
+    np = pytest.importorskip("numpy")
+    sp = pytest.importorskip("scipy")  # Required by incidence_matrix
+
+    H = nx.Graph()
+    for b in basis:
+        nx.add_cycle(H, b)
+    inc = nx.incidence_matrix(H, oriented=True)
+    rank = np.linalg.matrix_rank(inc.toarray(), tol=None, hermitian=False)
+    assert inc.shape[1] - rank == len(basis)
+
+
+class TestCycles:
+    @classmethod
+    def setup_class(cls):
+        G = nx.Graph()
+        nx.add_cycle(G, [0, 1, 2, 3])
+        nx.add_cycle(G, [0, 3, 4, 5])
+        nx.add_cycle(G, [0, 1, 6, 7, 8])
+        G.add_edge(8, 9)
+        cls.G = G
+
+    def is_cyclic_permutation(self, a, b):
+        n = len(a)
+        if len(b) != n:
+            return False
+        l = a + a
+        return any(l[i : i + n] == b for i in range(n))
+
+    def test_cycle_basis(self):
+        G = self.G
+        cy = nx.cycle_basis(G, 0)
+        sort_cy = sorted(sorted(c) for c in cy)
+        assert sort_cy == [[0, 1, 2, 3], [0, 1, 6, 7, 8], [0, 3, 4, 5]]
+        cy = nx.cycle_basis(G, 1)
+        sort_cy = sorted(sorted(c) for c in cy)
+        assert sort_cy == [[0, 1, 2, 3], [0, 1, 6, 7, 8], [0, 3, 4, 5]]
+        cy = nx.cycle_basis(G, 9)
+        sort_cy = sorted(sorted(c) for c in cy)
+        assert sort_cy == [[0, 1, 2, 3], [0, 1, 6, 7, 8], [0, 3, 4, 5]]
+        # test disconnected graphs
+        nx.add_cycle(G, "ABC")
+        cy = nx.cycle_basis(G, 9)
+        sort_cy = sorted(sorted(c) for c in cy[:-1]) + [sorted(cy[-1])]
+        assert sort_cy == [[0, 1, 2, 3], [0, 1, 6, 7, 8], [0, 3, 4, 5], ["A", "B", "C"]]
+
+    def test_cycle_basis2(self):
+        with pytest.raises(nx.NetworkXNotImplemented):
+            G = nx.DiGraph()
+            cy = nx.cycle_basis(G, 0)
+
+    def test_cycle_basis3(self):
+        with pytest.raises(nx.NetworkXNotImplemented):
+            G = nx.MultiGraph()
+            cy = nx.cycle_basis(G, 0)
+
+    def test_cycle_basis_ordered(self):
+        # see gh-6654 replace sets with (ordered) dicts
+        G = nx.cycle_graph(5)
+        G.update(nx.cycle_graph(range(3, 8)))
+        cbG = nx.cycle_basis(G)
+
+        perm = {1: 0, 0: 1}  # switch 0 and 1
+        H = nx.relabel_nodes(G, perm)
+        cbH = [[perm.get(n, n) for n in cyc] for cyc in nx.cycle_basis(H)]
+        assert cbG == cbH
+
+    def test_cycle_basis_self_loop(self):
+        """Tests the function for graphs with self loops"""
+        G = nx.Graph()
+        nx.add_cycle(G, [0, 1, 2, 3])
+        nx.add_cycle(G, [0, 0, 6, 2])
+        cy = nx.cycle_basis(G)
+        sort_cy = sorted(sorted(c) for c in cy)
+        assert sort_cy == [[0], [0, 1, 2], [0, 2, 3], [0, 2, 6]]
+
+    def test_simple_cycles(self):
+        edges = [(0, 0), (0, 1), (0, 2), (1, 2), (2, 0), (2, 1), (2, 2)]
+        G = nx.DiGraph(edges)
+        cc = sorted(nx.simple_cycles(G))
+        ca = [[0], [0, 1, 2], [0, 2], [1, 2], [2]]
+        assert len(cc) == len(ca)
+        for c in cc:
+            assert any(self.is_cyclic_permutation(c, rc) for rc in ca)
+
+    def test_simple_cycles_singleton(self):
+        G = nx.Graph([(0, 0)])  # self-loop
+        assert list(nx.simple_cycles(G)) == [[0]]
+
+    def test_unsortable(self):
+        # this test ensures that graphs whose nodes without an intrinsic
+        # ordering do not cause issues
+        G = nx.DiGraph()
+        nx.add_cycle(G, ["a", 1])
+        c = list(nx.simple_cycles(G))
+        assert len(c) == 1
+
+    def test_simple_cycles_small(self):
+        G = nx.DiGraph()
+        nx.add_cycle(G, [1, 2, 3])
+        c = sorted(nx.simple_cycles(G))
+        assert len(c) == 1
+        assert self.is_cyclic_permutation(c[0], [1, 2, 3])
+        nx.add_cycle(G, [10, 20, 30])
+        cc = sorted(nx.simple_cycles(G))
+        assert len(cc) == 2
+        ca = [[1, 2, 3], [10, 20, 30]]
+        for c in cc:
+            assert any(self.is_cyclic_permutation(c, rc) for rc in ca)
+
+    def test_simple_cycles_empty(self):
+        G = nx.DiGraph()
+        assert list(nx.simple_cycles(G)) == []
+
+    def worst_case_graph(self, k):
+        # see figure 1 in Johnson's paper
+        # this graph has exactly 3k simple cycles
+        G = nx.DiGraph()
+        for n in range(2, k + 2):
+            G.add_edge(1, n)
+            G.add_edge(n, k + 2)
+        G.add_edge(2 * k + 1, 1)
+        for n in range(k + 2, 2 * k + 2):
+            G.add_edge(n, 2 * k + 2)
+            G.add_edge(n, n + 1)
+        G.add_edge(2 * k + 3, k + 2)
+        for n in range(2 * k + 3, 3 * k + 3):
+            G.add_edge(2 * k + 2, n)
+            G.add_edge(n, 3 * k + 3)
+        G.add_edge(3 * k + 3, 2 * k + 2)
+        return G
+
+    def test_worst_case_graph(self):
+        # see figure 1 in Johnson's paper
+        for k in range(3, 10):
+            G = self.worst_case_graph(k)
+            l = len(list(nx.simple_cycles(G)))
+            assert l == 3 * k
+
+    def test_recursive_simple_and_not(self):
+        for k in range(2, 10):
+            G = self.worst_case_graph(k)
+            cc = sorted(nx.simple_cycles(G))
+            rcc = sorted(nx.recursive_simple_cycles(G))
+            assert len(cc) == len(rcc)
+            for c in cc:
+                assert any(self.is_cyclic_permutation(c, r) for r in rcc)
+            for rc in rcc:
+                assert any(self.is_cyclic_permutation(rc, c) for c in cc)
+
+    def test_simple_graph_with_reported_bug(self):
+        G = nx.DiGraph()
+        edges = [
+            (0, 2),
+            (0, 3),
+            (1, 0),
+            (1, 3),
+            (2, 1),
+            (2, 4),
+            (3, 2),
+            (3, 4),
+            (4, 0),
+            (4, 1),
+            (4, 5),
+            (5, 0),
+            (5, 1),
+            (5, 2),
+            (5, 3),
+        ]
+        G.add_edges_from(edges)
+        cc = sorted(nx.simple_cycles(G))
+        assert len(cc) == 26
+        rcc = sorted(nx.recursive_simple_cycles(G))
+        assert len(cc) == len(rcc)
+        for c in cc:
+            assert any(self.is_cyclic_permutation(c, rc) for rc in rcc)
+        for rc in rcc:
+            assert any(self.is_cyclic_permutation(rc, c) for c in cc)
+
+
+def pairwise(iterable):
+    a, b = tee(iterable)
+    next(b, None)
+    return zip(a, b)
+
+
+def cycle_edges(c):
+    return pairwise(chain(c, islice(c, 1)))
+
+
+def directed_cycle_edgeset(c):
+    return frozenset(cycle_edges(c))
+
+
+def undirected_cycle_edgeset(c):
+    if len(c) == 1:
+        return frozenset(cycle_edges(c))
+    return frozenset(map(frozenset, cycle_edges(c)))
+
+
+def multigraph_cycle_edgeset(c):
+    if len(c) <= 2:
+        return frozenset(cycle_edges(c))
+    else:
+        return frozenset(map(frozenset, cycle_edges(c)))
+
+
+class TestCycleEnumeration:
+    @staticmethod
+    def K(n):
+        return nx.complete_graph(n)
+
+    @staticmethod
+    def D(n):
+        return nx.complete_graph(n).to_directed()
+
+    @staticmethod
+    def edgeset_function(g):
+        if g.is_directed():
+            return directed_cycle_edgeset
+        elif g.is_multigraph():
+            return multigraph_cycle_edgeset
+        else:
+            return undirected_cycle_edgeset
+
+    def check_cycle(self, g, c, es, cache, source, original_c, length_bound, chordless):
+        if length_bound is not None and len(c) > length_bound:
+            raise RuntimeError(
+                f"computed cycle {original_c} exceeds length bound {length_bound}"
+            )
+        if source == "computed":
+            if es in cache:
+                raise RuntimeError(
+                    f"computed cycle {original_c} has already been found!"
+                )
+            else:
+                cache[es] = tuple(original_c)
+        else:
+            if es in cache:
+                cache.pop(es)
+            else:
+                raise RuntimeError(f"expected cycle {original_c} was not computed")
+
+        if not all(g.has_edge(*e) for e in es):
+            raise RuntimeError(
+                f"{source} claimed cycle {original_c} is not a cycle of g"
+            )
+        if chordless and len(g.subgraph(c).edges) > len(c):
+            raise RuntimeError(f"{source} cycle {original_c} is not chordless")
+
+    def check_cycle_algorithm(
+        self,
+        g,
+        expected_cycles,
+        length_bound=None,
+        chordless=False,
+        algorithm=None,
+    ):
+        if algorithm is None:
+            algorithm = nx.chordless_cycles if chordless else nx.simple_cycles
+
+        # note: we shuffle the labels of g to rule out accidentally-correct
+        # behavior which occurred during the development of chordless cycle
+        # enumeration algorithms
+
+        relabel = list(range(len(g)))
+        shuffle(relabel)
+        label = dict(zip(g, relabel))
+        unlabel = dict(zip(relabel, g))
+        h = nx.relabel_nodes(g, label, copy=True)
+
+        edgeset = self.edgeset_function(h)
+
+        params = {}
+        if length_bound is not None:
+            params["length_bound"] = length_bound
+
+        cycle_cache = {}
+        for c in algorithm(h, **params):
+            original_c = [unlabel[x] for x in c]
+            es = edgeset(c)
+            self.check_cycle(
+                h, c, es, cycle_cache, "computed", original_c, length_bound, chordless
+            )
+
+        if isinstance(expected_cycles, int):
+            if len(cycle_cache) != expected_cycles:
+                raise RuntimeError(
+                    f"expected {expected_cycles} cycles, got {len(cycle_cache)}"
+                )
+            return
+        for original_c in expected_cycles:
+            c = [label[x] for x in original_c]
+            es = edgeset(c)
+            self.check_cycle(
+                h, c, es, cycle_cache, "expected", original_c, length_bound, chordless
+            )
+
+        if len(cycle_cache):
+            for c in cycle_cache.values():
+                raise RuntimeError(
+                    f"computed cycle {c} is valid but not in the expected cycle set!"
+                )
+
+    def check_cycle_enumeration_integer_sequence(
+        self,
+        g_family,
+        cycle_counts,
+        length_bound=None,
+        chordless=False,
+        algorithm=None,
+    ):
+        for g, num_cycles in zip(g_family, cycle_counts):
+            self.check_cycle_algorithm(
+                g,
+                num_cycles,
+                length_bound=length_bound,
+                chordless=chordless,
+                algorithm=algorithm,
+            )
+
+    def test_directed_chordless_cycle_digons(self):
+        g = nx.DiGraph()
+        nx.add_cycle(g, range(5))
+        nx.add_cycle(g, range(5)[::-1])
+        g.add_edge(0, 0)
+        expected_cycles = [(0,), (1, 2), (2, 3), (3, 4)]
+        self.check_cycle_algorithm(g, expected_cycles, chordless=True)
+
+        self.check_cycle_algorithm(g, expected_cycles, chordless=True, length_bound=2)
+
+        expected_cycles = [c for c in expected_cycles if len(c) < 2]
+        self.check_cycle_algorithm(g, expected_cycles, chordless=True, length_bound=1)
+
+    def test_directed_chordless_cycle_undirected(self):
+        g = nx.DiGraph([(1, 2), (2, 3), (3, 4), (4, 5), (5, 0), (5, 1), (0, 2)])
+        expected_cycles = [(0, 2, 3, 4, 5), (1, 2, 3, 4, 5)]
+        self.check_cycle_algorithm(g, expected_cycles, chordless=True)
+
+        g = nx.DiGraph()
+        nx.add_cycle(g, range(5))
+        nx.add_cycle(g, range(4, 9))
+        g.add_edge(7, 3)
+        expected_cycles = [(0, 1, 2, 3, 4), (3, 4, 5, 6, 7), (4, 5, 6, 7, 8)]
+        self.check_cycle_algorithm(g, expected_cycles, chordless=True)
+
+        g.add_edge(3, 7)
+        expected_cycles = [(0, 1, 2, 3, 4), (3, 7), (4, 5, 6, 7, 8)]
+        self.check_cycle_algorithm(g, expected_cycles, chordless=True)
+
+        expected_cycles = [(3, 7)]
+        self.check_cycle_algorithm(g, expected_cycles, chordless=True, length_bound=4)
+
+        g.remove_edge(7, 3)
+        expected_cycles = [(0, 1, 2, 3, 4), (4, 5, 6, 7, 8)]
+        self.check_cycle_algorithm(g, expected_cycles, chordless=True)
+
+        g = nx.DiGraph((i, j) for i in range(10) for j in range(i))
+        expected_cycles = []
+        self.check_cycle_algorithm(g, expected_cycles, chordless=True)
+
+    def test_chordless_cycles_directed(self):
+        G = nx.DiGraph()
+        nx.add_cycle(G, range(5))
+        nx.add_cycle(G, range(4, 12))
+        expected = [[*range(5)], [*range(4, 12)]]
+        self.check_cycle_algorithm(G, expected, chordless=True)
+        self.check_cycle_algorithm(
+            G, [c for c in expected if len(c) <= 5], length_bound=5, chordless=True
+        )
+
+        G.add_edge(7, 3)
+        expected.append([*range(3, 8)])
+        self.check_cycle_algorithm(G, expected, chordless=True)
+        self.check_cycle_algorithm(
+            G, [c for c in expected if len(c) <= 5], length_bound=5, chordless=True
+        )
+
+        G.add_edge(3, 7)
+        expected[-1] = [7, 3]
+        self.check_cycle_algorithm(G, expected, chordless=True)
+        self.check_cycle_algorithm(
+            G, [c for c in expected if len(c) <= 5], length_bound=5, chordless=True
+        )
+
+        expected.pop()
+        G.remove_edge(7, 3)
+        self.check_cycle_algorithm(G, expected, chordless=True)
+        self.check_cycle_algorithm(
+            G, [c for c in expected if len(c) <= 5], length_bound=5, chordless=True
+        )
+
+    def test_directed_chordless_cycle_diclique(self):
+        g_family = [self.D(n) for n in range(10)]
+        expected_cycles = [(n * n - n) // 2 for n in range(10)]
+        self.check_cycle_enumeration_integer_sequence(
+            g_family, expected_cycles, chordless=True
+        )
+
+        expected_cycles = [(n * n - n) // 2 for n in range(10)]
+        self.check_cycle_enumeration_integer_sequence(
+            g_family, expected_cycles, length_bound=2
+        )
+
+    def test_directed_chordless_loop_blockade(self):
+        g = nx.DiGraph((i, i) for i in range(10))
+        nx.add_cycle(g, range(10))
+        expected_cycles = [(i,) for i in range(10)]
+        self.check_cycle_algorithm(g, expected_cycles, chordless=True)
+
+        self.check_cycle_algorithm(g, expected_cycles, length_bound=1)
+
+        g = nx.MultiDiGraph(g)
+        g.add_edges_from((i, i) for i in range(0, 10, 2))
+        expected_cycles = [(i,) for i in range(1, 10, 2)]
+        self.check_cycle_algorithm(g, expected_cycles, chordless=True)
+
+    def test_simple_cycles_notable_clique_sequences(self):
+        # A000292: Number of labeled graphs on n+3 nodes that are triangles.
+        g_family = [self.K(n) for n in range(2, 12)]
+        expected = [0, 1, 4, 10, 20, 35, 56, 84, 120, 165, 220]
+        self.check_cycle_enumeration_integer_sequence(
+            g_family, expected, length_bound=3
+        )
+
+        def triangles(g, **kwargs):
+            yield from (c for c in nx.simple_cycles(g, **kwargs) if len(c) == 3)
+
+        # directed complete graphs have twice as many triangles thanks to reversal
+        g_family = [self.D(n) for n in range(2, 12)]
+        expected = [2 * e for e in expected]
+        self.check_cycle_enumeration_integer_sequence(
+            g_family, expected, length_bound=3, algorithm=triangles
+        )
+
+        def four_cycles(g, **kwargs):
+            yield from (c for c in nx.simple_cycles(g, **kwargs) if len(c) == 4)
+
+        # A050534: the number of 4-cycles in the complete graph K_{n+1}
+        expected = [0, 0, 0, 3, 15, 45, 105, 210, 378, 630, 990]
+        g_family = [self.K(n) for n in range(1, 12)]
+        self.check_cycle_enumeration_integer_sequence(
+            g_family, expected, length_bound=4, algorithm=four_cycles
+        )
+
+        # directed complete graphs have twice as many 4-cycles thanks to reversal
+        expected = [2 * e for e in expected]
+        g_family = [self.D(n) for n in range(1, 15)]
+        self.check_cycle_enumeration_integer_sequence(
+            g_family, expected, length_bound=4, algorithm=four_cycles
+        )
+
+        # A006231: the number of elementary circuits in a complete directed graph with n nodes
+        expected = [0, 1, 5, 20, 84, 409, 2365]
+        g_family = [self.D(n) for n in range(1, 8)]
+        self.check_cycle_enumeration_integer_sequence(g_family, expected)
+
+        # A002807: Number of cycles in the complete graph on n nodes K_{n}.
+        expected = [0, 0, 0, 1, 7, 37, 197, 1172]
+        g_family = [self.K(n) for n in range(8)]
+        self.check_cycle_enumeration_integer_sequence(g_family, expected)
+
+    def test_directed_chordless_cycle_parallel_multiedges(self):
+        g = nx.MultiGraph()
+
+        nx.add_cycle(g, range(5))
+        expected = [[*range(5)]]
+        self.check_cycle_algorithm(g, expected, chordless=True)
+
+        nx.add_cycle(g, range(5))
+        expected = [*cycle_edges(range(5))]
+        self.check_cycle_algorithm(g, expected, chordless=True)
+
+        nx.add_cycle(g, range(5))
+        expected = []
+        self.check_cycle_algorithm(g, expected, chordless=True)
+
+        g = nx.MultiDiGraph()
+
+        nx.add_cycle(g, range(5))
+        expected = [[*range(5)]]
+        self.check_cycle_algorithm(g, expected, chordless=True)
+
+        nx.add_cycle(g, range(5))
+        self.check_cycle_algorithm(g, [], chordless=True)
+
+        nx.add_cycle(g, range(5))
+        self.check_cycle_algorithm(g, [], chordless=True)
+
+        g = nx.MultiDiGraph()
+
+        nx.add_cycle(g, range(5))
+        nx.add_cycle(g, range(5)[::-1])
+        expected = [*cycle_edges(range(5))]
+        self.check_cycle_algorithm(g, expected, chordless=True)
+
+        nx.add_cycle(g, range(5))
+        self.check_cycle_algorithm(g, [], chordless=True)
+
+    def test_chordless_cycles_graph(self):
+        G = nx.Graph()
+        nx.add_cycle(G, range(5))
+        nx.add_cycle(G, range(4, 12))
+        expected = [[*range(5)], [*range(4, 12)]]
+        self.check_cycle_algorithm(G, expected, chordless=True)
+        self.check_cycle_algorithm(
+            G, [c for c in expected if len(c) <= 5], length_bound=5, chordless=True
+        )
+
+        G.add_edge(7, 3)
+        expected.append([*range(3, 8)])
+        expected.append([4, 3, 7, 8, 9, 10, 11])
+        self.check_cycle_algorithm(G, expected, chordless=True)
+        self.check_cycle_algorithm(
+            G, [c for c in expected if len(c) <= 5], length_bound=5, chordless=True
+        )
+
+    def test_chordless_cycles_giant_hamiltonian(self):
+        # ... o - e - o - e - o ... # o = odd, e = even
+        # ... ---/ \-----/ \--- ... # <-- "long" edges
+        #
+        # each long edge belongs to exactly one triangle, and one giant cycle
+        # of length n/2.  The remaining edges each belong to a triangle
+
+        n = 1000
+        assert n % 2 == 0
+        G = nx.Graph()
+        for v in range(n):
+            if not v % 2:
+                G.add_edge(v, (v + 2) % n)
+            G.add_edge(v, (v + 1) % n)
+
+        expected = [[*range(0, n, 2)]] + [
+            [x % n for x in range(i, i + 3)] for i in range(0, n, 2)
+        ]
+        self.check_cycle_algorithm(G, expected, chordless=True)
+        self.check_cycle_algorithm(
+            G, [c for c in expected if len(c) <= 3], length_bound=3, chordless=True
+        )
+
+        # ... o -> e -> o -> e -> o ... # o = odd, e = even
+        # ... <---/ \---<---/ \---< ... # <-- "long" edges
+        #
+        # this time, we orient the short and long edges in opposition
+        # the cycle structure of this graph is the same, but we need to reverse
+        # the long one in our representation.  Also, we need to drop the size
+        # because our partitioning algorithm uses strongly connected components
+        # instead of separating graphs by their strong articulation points
+
+        n = 100
+        assert n % 2 == 0
+        G = nx.DiGraph()
+        for v in range(n):
+            G.add_edge(v, (v + 1) % n)
+            if not v % 2:
+                G.add_edge((v + 2) % n, v)
+
+        expected = [[*range(n - 2, -2, -2)]] + [
+            [x % n for x in range(i, i + 3)] for i in range(0, n, 2)
+        ]
+        self.check_cycle_algorithm(G, expected, chordless=True)
+        self.check_cycle_algorithm(
+            G, [c for c in expected if len(c) <= 3], length_bound=3, chordless=True
+        )
+
+    def test_simple_cycles_acyclic_tournament(self):
+        n = 10
+        G = nx.DiGraph((x, y) for x in range(n) for y in range(x))
+        self.check_cycle_algorithm(G, [])
+        self.check_cycle_algorithm(G, [], chordless=True)
+
+        for k in range(n + 1):
+            self.check_cycle_algorithm(G, [], length_bound=k)
+            self.check_cycle_algorithm(G, [], length_bound=k, chordless=True)
+
+    def test_simple_cycles_graph(self):
+        testG = nx.cycle_graph(8)
+        cyc1 = tuple(range(8))
+        self.check_cycle_algorithm(testG, [cyc1])
+
+        testG.add_edge(4, -1)
+        nx.add_path(testG, [3, -2, -3, -4])
+        self.check_cycle_algorithm(testG, [cyc1])
+
+        testG.update(nx.cycle_graph(range(8, 16)))
+        cyc2 = tuple(range(8, 16))
+        self.check_cycle_algorithm(testG, [cyc1, cyc2])
+
+        testG.update(nx.cycle_graph(range(4, 12)))
+        cyc3 = tuple(range(4, 12))
+        expected = {
+            (0, 1, 2, 3, 4, 5, 6, 7),  # cyc1
+            (8, 9, 10, 11, 12, 13, 14, 15),  # cyc2
+            (4, 5, 6, 7, 8, 9, 10, 11),  # cyc3
+            (4, 5, 6, 7, 8, 15, 14, 13, 12, 11),  # cyc2 + cyc3
+            (0, 1, 2, 3, 4, 11, 10, 9, 8, 7),  # cyc1 + cyc3
+            (0, 1, 2, 3, 4, 11, 12, 13, 14, 15, 8, 7),  # cyc1 + cyc2 + cyc3
+        }
+        self.check_cycle_algorithm(testG, expected)
+        assert len(expected) == (2**3 - 1) - 1  # 1 disjoint comb: cyc1 + cyc2
+
+        # Basis size = 5 (2 loops overlapping gives 5 small loops
+        #        E
+        #       / \         Note: A-F = 10-15
+        #    1-2-3-4-5
+        #    / |   |  \   cyc1=012DAB -- left
+        #   0  D   F  6   cyc2=234E   -- top
+        #   \  |   |  /   cyc3=45678F -- right
+        #    B-A-9-8-7    cyc4=89AC   -- bottom
+        #       \ /       cyc5=234F89AD -- middle
+        #        C
+        #
+        # combinations of 5 basis elements: 2^5 - 1  (one includes no cycles)
+        #
+        # disjoint combs: (11 total) not simple cycles
+        #   Any pair not including cyc5 => choose(4, 2) = 6
+        #   Any triple not including cyc5 => choose(4, 3) = 4
+        #   Any quad not including cyc5 => choose(4, 4) = 1
+        #
+        # we expect 31 - 11 = 20 simple cycles
+        #
+        testG = nx.cycle_graph(12)
+        testG.update(nx.cycle_graph([12, 10, 13, 2, 14, 4, 15, 8]).edges)
+        expected = (2**5 - 1) - 11  # 11 disjoint combinations
+        self.check_cycle_algorithm(testG, expected)
+
+    def test_simple_cycles_bounded(self):
+        # iteratively construct a cluster of nested cycles running in the same direction
+        # there should be one cycle of every length
+        d = nx.DiGraph()
+        expected = []
+        for n in range(10):
+            nx.add_cycle(d, range(n))
+            expected.append(n)
+            for k, e in enumerate(expected):
+                self.check_cycle_algorithm(d, e, length_bound=k)
+
+        # iteratively construct a path of undirected cycles, connected at articulation
+        # points.  there should be one cycle of every length except 2: no digons
+        g = nx.Graph()
+        top = 0
+        expected = []
+        for n in range(10):
+            expected.append(n if n < 2 else n - 1)
+            if n == 2:
+                # no digons in undirected graphs
+                continue
+            nx.add_cycle(g, range(top, top + n))
+            top += n
+            for k, e in enumerate(expected):
+                self.check_cycle_algorithm(g, e, length_bound=k)
+
+    def test_simple_cycles_bound_corner_cases(self):
+        G = nx.cycle_graph(4)
+        DG = nx.cycle_graph(4, create_using=nx.DiGraph)
+        assert list(nx.simple_cycles(G, length_bound=0)) == []
+        assert list(nx.simple_cycles(DG, length_bound=0)) == []
+        assert list(nx.chordless_cycles(G, length_bound=0)) == []
+        assert list(nx.chordless_cycles(DG, length_bound=0)) == []
+
+    def test_simple_cycles_bound_error(self):
+        with pytest.raises(ValueError):
+            G = nx.DiGraph()
+            for c in nx.simple_cycles(G, -1):
+                assert False
+
+        with pytest.raises(ValueError):
+            G = nx.Graph()
+            for c in nx.simple_cycles(G, -1):
+                assert False
+
+        with pytest.raises(ValueError):
+            G = nx.Graph()
+            for c in nx.chordless_cycles(G, -1):
+                assert False
+
+        with pytest.raises(ValueError):
+            G = nx.DiGraph()
+            for c in nx.chordless_cycles(G, -1):
+                assert False
+
+    def test_chordless_cycles_clique(self):
+        g_family = [self.K(n) for n in range(2, 15)]
+        expected = [0, 1, 4, 10, 20, 35, 56, 84, 120, 165, 220, 286, 364]
+        self.check_cycle_enumeration_integer_sequence(
+            g_family, expected, chordless=True
+        )
+
+        # directed cliques have as many digons as undirected graphs have edges
+        expected = [(n * n - n) // 2 for n in range(15)]
+        g_family = [self.D(n) for n in range(15)]
+        self.check_cycle_enumeration_integer_sequence(
+            g_family, expected, chordless=True
+        )
+
+
+# These tests might fail with hash randomization since they depend on
+# edge_dfs. For more information, see the comments in:
+#    networkx/algorithms/traversal/tests/test_edgedfs.py
+
+
+class TestFindCycle:
+    @classmethod
+    def setup_class(cls):
+        cls.nodes = [0, 1, 2, 3]
+        cls.edges = [(-1, 0), (0, 1), (1, 0), (1, 0), (2, 1), (3, 1)]
+
+    def test_graph_nocycle(self):
+        G = nx.Graph(self.edges)
+        pytest.raises(nx.exception.NetworkXNoCycle, nx.find_cycle, G, self.nodes)
+
+    def test_graph_cycle(self):
+        G = nx.Graph(self.edges)
+        G.add_edge(2, 0)
+        x = list(nx.find_cycle(G, self.nodes))
+        x_ = [(0, 1), (1, 2), (2, 0)]
+        assert x == x_
+
+    def test_graph_orientation_none(self):
+        G = nx.Graph(self.edges)
+        G.add_edge(2, 0)
+        x = list(nx.find_cycle(G, self.nodes, orientation=None))
+        x_ = [(0, 1), (1, 2), (2, 0)]
+        assert x == x_
+
+    def test_graph_orientation_original(self):
+        G = nx.Graph(self.edges)
+        G.add_edge(2, 0)
+        x = list(nx.find_cycle(G, self.nodes, orientation="original"))
+        x_ = [(0, 1, FORWARD), (1, 2, FORWARD), (2, 0, FORWARD)]
+        assert x == x_
+
+    def test_digraph(self):
+        G = nx.DiGraph(self.edges)
+        x = list(nx.find_cycle(G, self.nodes))
+        x_ = [(0, 1), (1, 0)]
+        assert x == x_
+
+    def test_digraph_orientation_none(self):
+        G = nx.DiGraph(self.edges)
+        x = list(nx.find_cycle(G, self.nodes, orientation=None))
+        x_ = [(0, 1), (1, 0)]
+        assert x == x_
+
+    def test_digraph_orientation_original(self):
+        G = nx.DiGraph(self.edges)
+        x = list(nx.find_cycle(G, self.nodes, orientation="original"))
+        x_ = [(0, 1, FORWARD), (1, 0, FORWARD)]
+        assert x == x_
+
+    def test_multigraph(self):
+        G = nx.MultiGraph(self.edges)
+        x = list(nx.find_cycle(G, self.nodes))
+        x_ = [(0, 1, 0), (1, 0, 1)]  # or (1, 0, 2)
+        # Hash randomization...could be any edge.
+        assert x[0] == x_[0]
+        assert x[1][:2] == x_[1][:2]
+
+    def test_multidigraph(self):
+        G = nx.MultiDiGraph(self.edges)
+        x = list(nx.find_cycle(G, self.nodes))
+        x_ = [(0, 1, 0), (1, 0, 0)]  # (1, 0, 1)
+        assert x[0] == x_[0]
+        assert x[1][:2] == x_[1][:2]
+
+    def test_digraph_ignore(self):
+        G = nx.DiGraph(self.edges)
+        x = list(nx.find_cycle(G, self.nodes, orientation="ignore"))
+        x_ = [(0, 1, FORWARD), (1, 0, FORWARD)]
+        assert x == x_
+
+    def test_digraph_reverse(self):
+        G = nx.DiGraph(self.edges)
+        x = list(nx.find_cycle(G, self.nodes, orientation="reverse"))
+        x_ = [(1, 0, REVERSE), (0, 1, REVERSE)]
+        assert x == x_
+
+    def test_multidigraph_ignore(self):
+        G = nx.MultiDiGraph(self.edges)
+        x = list(nx.find_cycle(G, self.nodes, orientation="ignore"))
+        x_ = [(0, 1, 0, FORWARD), (1, 0, 0, FORWARD)]  # or (1, 0, 1, 1)
+        assert x[0] == x_[0]
+        assert x[1][:2] == x_[1][:2]
+        assert x[1][3] == x_[1][3]
+
+    def test_multidigraph_ignore2(self):
+        # Loop traversed an edge while ignoring its orientation.
+        G = nx.MultiDiGraph([(0, 1), (1, 2), (1, 2)])
+        x = list(nx.find_cycle(G, [0, 1, 2], orientation="ignore"))
+        x_ = [(1, 2, 0, FORWARD), (1, 2, 1, REVERSE)]
+        assert x == x_
+
+    def test_multidigraph_original(self):
+        # Node 2 doesn't need to be searched again from visited from 4.
+        # The goal here is to cover the case when 2 to be researched from 4,
+        # when 4 is visited from the first time (so we must make sure that 4
+        # is not visited from 2, and hence, we respect the edge orientation).
+        G = nx.MultiDiGraph([(0, 1), (1, 2), (2, 3), (4, 2)])
+        pytest.raises(
+            nx.exception.NetworkXNoCycle,
+            nx.find_cycle,
+            G,
+            [0, 1, 2, 3, 4],
+            orientation="original",
+        )
+
+    def test_dag(self):
+        G = nx.DiGraph([(0, 1), (0, 2), (1, 2)])
+        pytest.raises(
+            nx.exception.NetworkXNoCycle, nx.find_cycle, G, orientation="original"
+        )
+        x = list(nx.find_cycle(G, orientation="ignore"))
+        assert x == [(0, 1, FORWARD), (1, 2, FORWARD), (0, 2, REVERSE)]
+
+    def test_prev_explored(self):
+        # https://github.com/networkx/networkx/issues/2323
+
+        G = nx.DiGraph()
+        G.add_edges_from([(1, 0), (2, 0), (1, 2), (2, 1)])
+        pytest.raises(nx.NetworkXNoCycle, nx.find_cycle, G, source=0)
+        x = list(nx.find_cycle(G, 1))
+        x_ = [(1, 2), (2, 1)]
+        assert x == x_
+
+        x = list(nx.find_cycle(G, 2))
+        x_ = [(2, 1), (1, 2)]
+        assert x == x_
+
+        x = list(nx.find_cycle(G))
+        x_ = [(1, 2), (2, 1)]
+        assert x == x_
+
+    def test_no_cycle(self):
+        # https://github.com/networkx/networkx/issues/2439
+
+        G = nx.DiGraph()
+        G.add_edges_from([(1, 2), (2, 0), (3, 1), (3, 2)])
+        pytest.raises(nx.NetworkXNoCycle, nx.find_cycle, G, source=0)
+        pytest.raises(nx.NetworkXNoCycle, nx.find_cycle, G)
+
+
+def assert_basis_equal(a, b):
+    assert sorted(a) == sorted(b)
+
+
+class TestMinimumCycleBasis:
+    @classmethod
+    def setup_class(cls):
+        T = nx.Graph()
+        nx.add_cycle(T, [1, 2, 3, 4], weight=1)
+        T.add_edge(2, 4, weight=5)
+        cls.diamond_graph = T
+
+    def test_unweighted_diamond(self):
+        mcb = nx.minimum_cycle_basis(self.diamond_graph)
+        assert_basis_equal(mcb, [[2, 4, 1], [3, 4, 2]])
+
+    def test_weighted_diamond(self):
+        mcb = nx.minimum_cycle_basis(self.diamond_graph, weight="weight")
+        assert_basis_equal(mcb, [[2, 4, 1], [4, 3, 2, 1]])
+
+    def test_dimensionality(self):
+        # checks |MCB|=|E|-|V|+|NC|
+        ntrial = 10
+        for seed in range(1234, 1234 + ntrial):
+            rg = nx.erdos_renyi_graph(10, 0.3, seed=seed)
+            nnodes = rg.number_of_nodes()
+            nedges = rg.number_of_edges()
+            ncomp = nx.number_connected_components(rg)
+
+            mcb = nx.minimum_cycle_basis(rg)
+            assert len(mcb) == nedges - nnodes + ncomp
+            check_independent(mcb)
+
+    def test_complete_graph(self):
+        cg = nx.complete_graph(5)
+        mcb = nx.minimum_cycle_basis(cg)
+        assert all(len(cycle) == 3 for cycle in mcb)
+        check_independent(mcb)
+
+    def test_tree_graph(self):
+        tg = nx.balanced_tree(3, 3)
+        assert not nx.minimum_cycle_basis(tg)
+
+    def test_petersen_graph(self):
+        G = nx.petersen_graph()
+        mcb = list(nx.minimum_cycle_basis(G))
+        expected = [
+            [4, 9, 7, 5, 0],
+            [1, 2, 3, 4, 0],
+            [1, 6, 8, 5, 0],
+            [4, 3, 8, 5, 0],
+            [1, 6, 9, 4, 0],
+            [1, 2, 7, 5, 0],
+        ]
+        assert len(mcb) == len(expected)
+        assert all(c in expected for c in mcb)
+
+        # check that order of the nodes is a path
+        for c in mcb:
+            assert all(G.has_edge(u, v) for u, v in nx.utils.pairwise(c, cyclic=True))
+        # check independence of the basis
+        check_independent(mcb)
+
+    def test_gh6787_variable_weighted_complete_graph(self):
+        N = 8
+        cg = nx.complete_graph(N)
+        cg.add_weighted_edges_from([(u, v, 9) for u, v in cg.edges])
+        cg.add_weighted_edges_from([(u, v, 1) for u, v in nx.cycle_graph(N).edges])
+        mcb = nx.minimum_cycle_basis(cg, weight="weight")
+        check_independent(mcb)
+
+    def test_gh6787_and_edge_attribute_names(self):
+        G = nx.cycle_graph(4)
+        G.add_weighted_edges_from([(0, 2, 10), (1, 3, 10)], weight="dist")
+        expected = [[1, 3, 0], [3, 2, 1, 0], [1, 2, 0]]
+        mcb = list(nx.minimum_cycle_basis(G, weight="dist"))
+        assert len(mcb) == len(expected)
+        assert all(c in expected for c in mcb)
+
+        # test not using a weight with weight attributes
+        expected = [[1, 3, 0], [1, 2, 0], [3, 2, 0]]
+        mcb = list(nx.minimum_cycle_basis(G))
+        assert len(mcb) == len(expected)
+        assert all(c in expected for c in mcb)
+
+
+class TestGirth:
+    @pytest.mark.parametrize(
+        ("G", "expected"),
+        (
+            (nx.chvatal_graph(), 4),
+            (nx.tutte_graph(), 4),
+            (nx.petersen_graph(), 5),
+            (nx.heawood_graph(), 6),
+            (nx.pappus_graph(), 6),
+            (nx.random_tree(10, seed=42), inf),
+            (nx.empty_graph(10), inf),
+            (nx.Graph(chain(cycle_edges(range(5)), cycle_edges(range(6, 10)))), 4),
+            (
+                nx.Graph(
+                    [
+                        (0, 6),
+                        (0, 8),
+                        (0, 9),
+                        (1, 8),
+                        (2, 8),
+                        (2, 9),
+                        (4, 9),
+                        (5, 9),
+                        (6, 8),
+                        (6, 9),
+                        (7, 8),
+                    ]
+                ),
+                3,
+            ),
+        ),
+    )
+    def test_girth(self, G, expected):
+        assert nx.girth(G) == expected

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_distance_regular.py

@@ -0,0 +1,85 @@
+import pytest
+
+import networkx as nx
+from networkx import is_strongly_regular
+
+
+@pytest.mark.parametrize(
+    "f", (nx.is_distance_regular, nx.intersection_array, nx.is_strongly_regular)
+)
+@pytest.mark.parametrize("graph_constructor", (nx.DiGraph, nx.MultiGraph))
+def test_raises_on_directed_and_multigraphs(f, graph_constructor):
+    G = graph_constructor([(0, 1), (1, 2)])
+    with pytest.raises(nx.NetworkXNotImplemented):
+        f(G)
+
+
+class TestDistanceRegular:
+    def test_is_distance_regular(self):
+        assert nx.is_distance_regular(nx.icosahedral_graph())
+        assert nx.is_distance_regular(nx.petersen_graph())
+        assert nx.is_distance_regular(nx.cubical_graph())
+        assert nx.is_distance_regular(nx.complete_bipartite_graph(3, 3))
+        assert nx.is_distance_regular(nx.tetrahedral_graph())
+        assert nx.is_distance_regular(nx.dodecahedral_graph())
+        assert nx.is_distance_regular(nx.pappus_graph())
+        assert nx.is_distance_regular(nx.heawood_graph())
+        assert nx.is_distance_regular(nx.cycle_graph(3))
+        # no distance regular
+        assert not nx.is_distance_regular(nx.path_graph(4))
+
+    def test_not_connected(self):
+        G = nx.cycle_graph(4)
+        nx.add_cycle(G, [5, 6, 7])
+        assert not nx.is_distance_regular(G)
+
+    def test_global_parameters(self):
+        b, c = nx.intersection_array(nx.cycle_graph(5))
+        g = nx.global_parameters(b, c)
+        assert list(g) == [(0, 0, 2), (1, 0, 1), (1, 1, 0)]
+        b, c = nx.intersection_array(nx.cycle_graph(3))
+        g = nx.global_parameters(b, c)
+        assert list(g) == [(0, 0, 2), (1, 1, 0)]
+
+    def test_intersection_array(self):
+        b, c = nx.intersection_array(nx.cycle_graph(5))
+        assert b == [2, 1]
+        assert c == [1, 1]
+        b, c = nx.intersection_array(nx.dodecahedral_graph())
+        assert b == [3, 2, 1, 1, 1]
+        assert c == [1, 1, 1, 2, 3]
+        b, c = nx.intersection_array(nx.icosahedral_graph())
+        assert b == [5, 2, 1]
+        assert c == [1, 2, 5]
+
+
+@pytest.mark.parametrize("f", (nx.is_distance_regular, nx.is_strongly_regular))
+def test_empty_graph_raises(f):
+    G = nx.Graph()
+    with pytest.raises(nx.NetworkXPointlessConcept, match="Graph has no nodes"):
+        f(G)
+
+
+class TestStronglyRegular:
+    """Unit tests for the :func:`~networkx.is_strongly_regular`
+    function.
+
+    """
+
+    def test_cycle_graph(self):
+        """Tests that the cycle graph on five vertices is strongly
+        regular.
+
+        """
+        G = nx.cycle_graph(5)
+        assert is_strongly_regular(G)
+
+    def test_petersen_graph(self):
+        """Tests that the Petersen graph is strongly regular."""
+        G = nx.petersen_graph()
+        assert is_strongly_regular(G)
+
+    def test_path_graph(self):
+        """Tests that the path graph is not strongly regular."""
+        G = nx.path_graph(4)
+        assert not is_strongly_regular(G)

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_dominating.py

@@ -0,0 +1,46 @@
+import pytest
+
+import networkx as nx
+
+
+def test_dominating_set():
+    G = nx.gnp_random_graph(100, 0.1)
+    D = nx.dominating_set(G)
+    assert nx.is_dominating_set(G, D)
+    D = nx.dominating_set(G, start_with=0)
+    assert nx.is_dominating_set(G, D)
+
+
+def test_complete():
+    """In complete graphs each node is a dominating set.
+    Thus the dominating set has to be of cardinality 1.
+    """
+    K4 = nx.complete_graph(4)
+    assert len(nx.dominating_set(K4)) == 1
+    K5 = nx.complete_graph(5)
+    assert len(nx.dominating_set(K5)) == 1
+
+
+def test_raise_dominating_set():
+    with pytest.raises(nx.NetworkXError):
+        G = nx.path_graph(4)
+        D = nx.dominating_set(G, start_with=10)
+
+
+def test_is_dominating_set():
+    G = nx.path_graph(4)
+    d = {1, 3}
+    assert nx.is_dominating_set(G, d)
+    d = {0, 2}
+    assert nx.is_dominating_set(G, d)
+    d = {1}
+    assert not nx.is_dominating_set(G, d)
+
+
+def test_wikipedia_is_dominating_set():
+    """Example from https://en.wikipedia.org/wiki/Dominating_set"""
+    G = nx.cycle_graph(4)
+    G.add_edges_from([(0, 4), (1, 4), (2, 5)])
+    assert nx.is_dominating_set(G, {4, 3, 5})
+    assert nx.is_dominating_set(G, {0, 2})
+    assert nx.is_dominating_set(G, {1, 2})

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_efficiency.py

@@ -0,0 +1,58 @@
+"""Unit tests for the :mod:`networkx.algorithms.efficiency` module."""
+
+import networkx as nx
+
+
+class TestEfficiency:
+    def setup_method(self):
+        # G1 is a disconnected graph
+        self.G1 = nx.Graph()
+        self.G1.add_nodes_from([1, 2, 3])
+        # G2 is a cycle graph
+        self.G2 = nx.cycle_graph(4)
+        # G3 is the triangle graph with one additional edge
+        self.G3 = nx.lollipop_graph(3, 1)
+
+    def test_efficiency_disconnected_nodes(self):
+        """
+        When nodes are disconnected, efficiency is 0
+        """
+        assert nx.efficiency(self.G1, 1, 2) == 0
+
+    def test_local_efficiency_disconnected_graph(self):
+        """
+        In a disconnected graph the efficiency is 0
+        """
+        assert nx.local_efficiency(self.G1) == 0
+
+    def test_efficiency(self):
+        assert nx.efficiency(self.G2, 0, 1) == 1
+        assert nx.efficiency(self.G2, 0, 2) == 1 / 2
+
+    def test_global_efficiency(self):
+        assert nx.global_efficiency(self.G2) == 5 / 6
+
+    def test_global_efficiency_complete_graph(self):
+        """
+        Tests that the average global efficiency of the complete graph is one.
+        """
+        for n in range(2, 10):
+            G = nx.complete_graph(n)
+            assert nx.global_efficiency(G) == 1
+
+    def test_local_efficiency_complete_graph(self):
+        """
+        Test that the local efficiency for a complete graph with at least 3
+        nodes should be one. For a graph with only 2 nodes, the induced
+        subgraph has no edges.
+        """
+        for n in range(3, 10):
+            G = nx.complete_graph(n)
+            assert nx.local_efficiency(G) == 1
+
+    def test_using_ego_graph(self):
+        """
+        Test that the ego graph is used when computing local efficiency.
+        For more information, see GitHub issue #2710.
+        """
+        assert nx.local_efficiency(self.G3) == 7 / 12

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_euler.py

@@ -0,0 +1,314 @@
+import collections
+
+import pytest
+
+import networkx as nx
+
+
+@pytest.mark.parametrize("f", (nx.is_eulerian, nx.is_semieulerian))
+def test_empty_graph_raises(f):
+    G = nx.Graph()
+    with pytest.raises(nx.NetworkXPointlessConcept, match="Connectivity is undefined"):
+        f(G)
+
+
+class TestIsEulerian:
+    def test_is_eulerian(self):
+        assert nx.is_eulerian(nx.complete_graph(5))
+        assert nx.is_eulerian(nx.complete_graph(7))
+        assert nx.is_eulerian(nx.hypercube_graph(4))
+        assert nx.is_eulerian(nx.hypercube_graph(6))
+
+        assert not nx.is_eulerian(nx.complete_graph(4))
+        assert not nx.is_eulerian(nx.complete_graph(6))
+        assert not nx.is_eulerian(nx.hypercube_graph(3))
+        assert not nx.is_eulerian(nx.hypercube_graph(5))
+
+        assert not nx.is_eulerian(nx.petersen_graph())
+        assert not nx.is_eulerian(nx.path_graph(4))
+
+    def test_is_eulerian2(self):
+        # not connected
+        G = nx.Graph()
+        G.add_nodes_from([1, 2, 3])
+        assert not nx.is_eulerian(G)
+        # not strongly connected
+        G = nx.DiGraph()
+        G.add_nodes_from([1, 2, 3])
+        assert not nx.is_eulerian(G)
+        G = nx.MultiDiGraph()
+        G.add_edge(1, 2)
+        G.add_edge(2, 3)
+        G.add_edge(2, 3)
+        G.add_edge(3, 1)
+        assert not nx.is_eulerian(G)
+
+
+class TestEulerianCircuit:
+    def test_eulerian_circuit_cycle(self):
+        G = nx.cycle_graph(4)
+
+        edges = list(nx.eulerian_circuit(G, source=0))
+        nodes = [u for u, v in edges]
+        assert nodes == [0, 3, 2, 1]
+        assert edges == [(0, 3), (3, 2), (2, 1), (1, 0)]
+
+        edges = list(nx.eulerian_circuit(G, source=1))
+        nodes = [u for u, v in edges]
+        assert nodes == [1, 2, 3, 0]
+        assert edges == [(1, 2), (2, 3), (3, 0), (0, 1)]
+
+        G = nx.complete_graph(3)
+
+        edges = list(nx.eulerian_circuit(G, source=0))
+        nodes = [u for u, v in edges]
+        assert nodes == [0, 2, 1]
+        assert edges == [(0, 2), (2, 1), (1, 0)]
+
+        edges = list(nx.eulerian_circuit(G, source=1))
+        nodes = [u for u, v in edges]
+        assert nodes == [1, 2, 0]
+        assert edges == [(1, 2), (2, 0), (0, 1)]
+
+    def test_eulerian_circuit_digraph(self):
+        G = nx.DiGraph()
+        nx.add_cycle(G, [0, 1, 2, 3])
+
+        edges = list(nx.eulerian_circuit(G, source=0))
+        nodes = [u for u, v in edges]
+        assert nodes == [0, 1, 2, 3]
+        assert edges == [(0, 1), (1, 2), (2, 3), (3, 0)]
+
+        edges = list(nx.eulerian_circuit(G, source=1))
+        nodes = [u for u, v in edges]
+        assert nodes == [1, 2, 3, 0]
+        assert edges == [(1, 2), (2, 3), (3, 0), (0, 1)]
+
+    def test_multigraph(self):
+        G = nx.MultiGraph()
+        nx.add_cycle(G, [0, 1, 2, 3])
+        G.add_edge(1, 2)
+        G.add_edge(1, 2)
+        edges = list(nx.eulerian_circuit(G, source=0))
+        nodes = [u for u, v in edges]
+        assert nodes == [0, 3, 2, 1, 2, 1]
+        assert edges == [(0, 3), (3, 2), (2, 1), (1, 2), (2, 1), (1, 0)]
+
+    def test_multigraph_with_keys(self):
+        G = nx.MultiGraph()
+        nx.add_cycle(G, [0, 1, 2, 3])
+        G.add_edge(1, 2)
+        G.add_edge(1, 2)
+        edges = list(nx.eulerian_circuit(G, source=0, keys=True))
+        nodes = [u for u, v, k in edges]
+        assert nodes == [0, 3, 2, 1, 2, 1]
+        assert edges[:2] == [(0, 3, 0), (3, 2, 0)]
+        assert collections.Counter(edges[2:5]) == collections.Counter(
+            [(2, 1, 0), (1, 2, 1), (2, 1, 2)]
+        )
+        assert edges[5:] == [(1, 0, 0)]
+
+    def test_not_eulerian(self):
+        with pytest.raises(nx.NetworkXError):
+            f = list(nx.eulerian_circuit(nx.complete_graph(4)))
+
+
+class TestIsSemiEulerian:
+    def test_is_semieulerian(self):
+        # Test graphs with Eulerian paths but no cycles return True.
+        assert nx.is_semieulerian(nx.path_graph(4))
+        G = nx.path_graph(6, create_using=nx.DiGraph)
+        assert nx.is_semieulerian(G)
+
+        # Test graphs with Eulerian cycles return False.
+        assert not nx.is_semieulerian(nx.complete_graph(5))
+        assert not nx.is_semieulerian(nx.complete_graph(7))
+        assert not nx.is_semieulerian(nx.hypercube_graph(4))
+        assert not nx.is_semieulerian(nx.hypercube_graph(6))
+
+
+class TestHasEulerianPath:
+    def test_has_eulerian_path_cyclic(self):
+        # Test graphs with Eulerian cycles return True.
+        assert nx.has_eulerian_path(nx.complete_graph(5))
+        assert nx.has_eulerian_path(nx.complete_graph(7))
+        assert nx.has_eulerian_path(nx.hypercube_graph(4))
+        assert nx.has_eulerian_path(nx.hypercube_graph(6))
+
+    def test_has_eulerian_path_non_cyclic(self):
+        # Test graphs with Eulerian paths but no cycles return True.
+        assert nx.has_eulerian_path(nx.path_graph(4))
+        G = nx.path_graph(6, create_using=nx.DiGraph)
+        assert nx.has_eulerian_path(G)
+
+    def test_has_eulerian_path_directed_graph(self):
+        # Test directed graphs and returns False
+        G = nx.DiGraph()
+        G.add_edges_from([(0, 1), (1, 2), (0, 2)])
+        assert not nx.has_eulerian_path(G)
+
+        # Test directed graphs without isolated node returns True
+        G = nx.DiGraph()
+        G.add_edges_from([(0, 1), (1, 2), (2, 0)])
+        assert nx.has_eulerian_path(G)
+
+        # Test directed graphs with isolated node returns False
+        G.add_node(3)
+        assert not nx.has_eulerian_path(G)
+
+    @pytest.mark.parametrize("G", (nx.Graph(), nx.DiGraph()))
+    def test_has_eulerian_path_not_weakly_connected(self, G):
+        G.add_edges_from([(0, 1), (2, 3), (3, 2)])
+        assert not nx.has_eulerian_path(G)
+
+    @pytest.mark.parametrize("G", (nx.Graph(), nx.DiGraph()))
+    def test_has_eulerian_path_unbalancedins_more_than_one(self, G):
+        G.add_edges_from([(0, 1), (2, 3)])
+        assert not nx.has_eulerian_path(G)
+
+
+class TestFindPathStart:
+    def testfind_path_start(self):
+        find_path_start = nx.algorithms.euler._find_path_start
+        # Test digraphs return correct starting node.
+        G = nx.path_graph(6, create_using=nx.DiGraph)
+        assert find_path_start(G) == 0
+        edges = [(0, 1), (1, 2), (2, 0), (4, 0)]
+        assert find_path_start(nx.DiGraph(edges)) == 4
+
+        # Test graph with no Eulerian path return None.
+        edges = [(0, 1), (1, 2), (2, 3), (2, 4)]
+        assert find_path_start(nx.DiGraph(edges)) is None
+
+
+class TestEulerianPath:
+    def test_eulerian_path(self):
+        x = [(4, 0), (0, 1), (1, 2), (2, 0)]
+        for e1, e2 in zip(x, nx.eulerian_path(nx.DiGraph(x))):
+            assert e1 == e2
+
+    def test_eulerian_path_straight_link(self):
+        G = nx.DiGraph()
+        result = [(1, 2), (2, 3), (3, 4), (4, 5)]
+        G.add_edges_from(result)
+        assert result == list(nx.eulerian_path(G))
+        assert result == list(nx.eulerian_path(G, source=1))
+        with pytest.raises(nx.NetworkXError):
+            list(nx.eulerian_path(G, source=3))
+        with pytest.raises(nx.NetworkXError):
+            list(nx.eulerian_path(G, source=4))
+        with pytest.raises(nx.NetworkXError):
+            list(nx.eulerian_path(G, source=5))
+
+    def test_eulerian_path_multigraph(self):
+        G = nx.MultiDiGraph()
+        result = [(2, 1), (1, 2), (2, 1), (1, 2), (2, 3), (3, 4), (4, 3)]
+        G.add_edges_from(result)
+        assert result == list(nx.eulerian_path(G))
+        assert result == list(nx.eulerian_path(G, source=2))
+        with pytest.raises(nx.NetworkXError):
+            list(nx.eulerian_path(G, source=3))
+        with pytest.raises(nx.NetworkXError):
+            list(nx.eulerian_path(G, source=4))
+
+    def test_eulerian_path_eulerian_circuit(self):
+        G = nx.DiGraph()
+        result = [(1, 2), (2, 3), (3, 4), (4, 1)]
+        result2 = [(2, 3), (3, 4), (4, 1), (1, 2)]
+        result3 = [(3, 4), (4, 1), (1, 2), (2, 3)]
+        G.add_edges_from(result)
+        assert result == list(nx.eulerian_path(G))
+        assert result == list(nx.eulerian_path(G, source=1))
+        assert result2 == list(nx.eulerian_path(G, source=2))
+        assert result3 == list(nx.eulerian_path(G, source=3))
+
+    def test_eulerian_path_undirected(self):
+        G = nx.Graph()
+        result = [(1, 2), (2, 3), (3, 4), (4, 5)]
+        result2 = [(5, 4), (4, 3), (3, 2), (2, 1)]
+        G.add_edges_from(result)
+        assert list(nx.eulerian_path(G)) in (result, result2)
+        assert result == list(nx.eulerian_path(G, source=1))
+        assert result2 == list(nx.eulerian_path(G, source=5))
+        with pytest.raises(nx.NetworkXError):
+            list(nx.eulerian_path(G, source=3))
+        with pytest.raises(nx.NetworkXError):
+            list(nx.eulerian_path(G, source=2))
+
+    def test_eulerian_path_multigraph_undirected(self):
+        G = nx.MultiGraph()
+        result = [(2, 1), (1, 2), (2, 1), (1, 2), (2, 3), (3, 4)]
+        G.add_edges_from(result)
+        assert result == list(nx.eulerian_path(G))
+        assert result == list(nx.eulerian_path(G, source=2))
+        with pytest.raises(nx.NetworkXError):
+            list(nx.eulerian_path(G, source=3))
+        with pytest.raises(nx.NetworkXError):
+            list(nx.eulerian_path(G, source=1))
+
+    @pytest.mark.parametrize(
+        ("graph_type", "result"),
+        (
+            (nx.MultiGraph, [(0, 1, 0), (1, 0, 1)]),
+            (nx.MultiDiGraph, [(0, 1, 0), (1, 0, 0)]),
+        ),
+    )
+    def test_eulerian_with_keys(self, graph_type, result):
+        G = graph_type([(0, 1), (1, 0)])
+        answer = nx.eulerian_path(G, keys=True)
+        assert list(answer) == result
+
+
+class TestEulerize:
+    def test_disconnected(self):
+        with pytest.raises(nx.NetworkXError):
+            G = nx.from_edgelist([(0, 1), (2, 3)])
+            nx.eulerize(G)
+
+    def test_null_graph(self):
+        with pytest.raises(nx.NetworkXPointlessConcept):
+            nx.eulerize(nx.Graph())
+
+    def test_null_multigraph(self):
+        with pytest.raises(nx.NetworkXPointlessConcept):
+            nx.eulerize(nx.MultiGraph())
+
+    def test_on_empty_graph(self):
+        with pytest.raises(nx.NetworkXError):
+            nx.eulerize(nx.empty_graph(3))
+
+    def test_on_eulerian(self):
+        G = nx.cycle_graph(3)
+        H = nx.eulerize(G)
+        assert nx.is_isomorphic(G, H)
+
+    def test_on_eulerian_multigraph(self):
+        G = nx.MultiGraph(nx.cycle_graph(3))
+        G.add_edge(0, 1)
+        H = nx.eulerize(G)
+        assert nx.is_eulerian(H)
+
+    def test_on_complete_graph(self):
+        G = nx.complete_graph(4)
+        assert nx.is_eulerian(nx.eulerize(G))
+        assert nx.is_eulerian(nx.eulerize(nx.MultiGraph(G)))
+
+    def test_on_non_eulerian_graph(self):
+        G = nx.cycle_graph(18)
+        G.add_edge(0, 18)
+        G.add_edge(18, 19)
+        G.add_edge(17, 19)
+        G.add_edge(4, 20)
+        G.add_edge(20, 21)
+        G.add_edge(21, 22)
+        G.add_edge(22, 23)
+        G.add_edge(23, 24)
+        G.add_edge(24, 25)
+        G.add_edge(25, 26)
+        G.add_edge(26, 27)
+        G.add_edge(27, 28)
+        G.add_edge(28, 13)
+        assert not nx.is_eulerian(G)
+        G = nx.eulerize(G)
+        assert nx.is_eulerian(G)
+        assert nx.number_of_edges(G) == 39

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_graph_hashing.py

@@ -0,0 +1,686 @@
+import pytest
+
+import networkx as nx
+from networkx.generators import directed
+
+# Unit tests for the :func:`~networkx.weisfeiler_lehman_graph_hash` function
+
+
+def test_empty_graph_hash():
+    """
+    empty graphs should give hashes regardless of other params
+    """
+    G1 = nx.empty_graph()
+    G2 = nx.empty_graph()
+
+    h1 = nx.weisfeiler_lehman_graph_hash(G1)
+    h2 = nx.weisfeiler_lehman_graph_hash(G2)
+    h3 = nx.weisfeiler_lehman_graph_hash(G2, edge_attr="edge_attr1")
+    h4 = nx.weisfeiler_lehman_graph_hash(G2, node_attr="node_attr1")
+    h5 = nx.weisfeiler_lehman_graph_hash(
+        G2, edge_attr="edge_attr1", node_attr="node_attr1"
+    )
+    h6 = nx.weisfeiler_lehman_graph_hash(G2, iterations=10)
+
+    assert h1 == h2
+    assert h1 == h3
+    assert h1 == h4
+    assert h1 == h5
+    assert h1 == h6
+
+
+def test_directed():
+    """
+    A directed graph with no bi-directional edges should yield different a graph hash
+    to the same graph taken as undirected if there are no hash collisions.
+    """
+    r = 10
+    for i in range(r):
+        G_directed = nx.gn_graph(10 + r, seed=100 + i)
+        G_undirected = nx.to_undirected(G_directed)
+
+        h_directed = nx.weisfeiler_lehman_graph_hash(G_directed)
+        h_undirected = nx.weisfeiler_lehman_graph_hash(G_undirected)
+
+        assert h_directed != h_undirected
+
+
+def test_reversed():
+    """
+    A directed graph with no bi-directional edges should yield different a graph hash
+    to the same graph taken with edge directions reversed if there are no hash collisions.
+    Here we test a cycle graph which is the minimal counterexample
+    """
+    G = nx.cycle_graph(5, create_using=nx.DiGraph)
+    nx.set_node_attributes(G, {n: str(n) for n in G.nodes()}, name="label")
+
+    G_reversed = G.reverse()
+
+    h = nx.weisfeiler_lehman_graph_hash(G, node_attr="label")
+    h_reversed = nx.weisfeiler_lehman_graph_hash(G_reversed, node_attr="label")
+
+    assert h != h_reversed
+
+
+def test_isomorphic():
+    """
+    graph hashes should be invariant to node-relabeling (when the output is reindexed
+    by the same mapping)
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G1 = nx.erdos_renyi_graph(n, p * i, seed=200 + i)
+        G2 = nx.relabel_nodes(G1, {u: -1 * u for u in G1.nodes()})
+
+        g1_hash = nx.weisfeiler_lehman_graph_hash(G1)
+        g2_hash = nx.weisfeiler_lehman_graph_hash(G2)
+
+        assert g1_hash == g2_hash
+
+
+def test_isomorphic_edge_attr():
+    """
+    Isomorphic graphs with differing edge attributes should yield different graph
+    hashes if the 'edge_attr' argument is supplied and populated in the graph,
+    and there are no hash collisions.
+    The output should still be invariant to node-relabeling
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G1 = nx.erdos_renyi_graph(n, p * i, seed=300 + i)
+
+        for a, b in G1.edges:
+            G1[a][b]["edge_attr1"] = f"{a}-{b}-1"
+            G1[a][b]["edge_attr2"] = f"{a}-{b}-2"
+
+        g1_hash_with_edge_attr1 = nx.weisfeiler_lehman_graph_hash(
+            G1, edge_attr="edge_attr1"
+        )
+        g1_hash_with_edge_attr2 = nx.weisfeiler_lehman_graph_hash(
+            G1, edge_attr="edge_attr2"
+        )
+        g1_hash_no_edge_attr = nx.weisfeiler_lehman_graph_hash(G1, edge_attr=None)
+
+        assert g1_hash_with_edge_attr1 != g1_hash_no_edge_attr
+        assert g1_hash_with_edge_attr2 != g1_hash_no_edge_attr
+        assert g1_hash_with_edge_attr1 != g1_hash_with_edge_attr2
+
+        G2 = nx.relabel_nodes(G1, {u: -1 * u for u in G1.nodes()})
+
+        g2_hash_with_edge_attr1 = nx.weisfeiler_lehman_graph_hash(
+            G2, edge_attr="edge_attr1"
+        )
+        g2_hash_with_edge_attr2 = nx.weisfeiler_lehman_graph_hash(
+            G2, edge_attr="edge_attr2"
+        )
+
+        assert g1_hash_with_edge_attr1 == g2_hash_with_edge_attr1
+        assert g1_hash_with_edge_attr2 == g2_hash_with_edge_attr2
+
+
+def test_missing_edge_attr():
+    """
+    If the 'edge_attr' argument is supplied but is missing from an edge in the graph,
+    we should raise a KeyError
+    """
+    G = nx.Graph()
+    G.add_edges_from([(1, 2, {"edge_attr1": "a"}), (1, 3, {})])
+    pytest.raises(KeyError, nx.weisfeiler_lehman_graph_hash, G, edge_attr="edge_attr1")
+
+
+def test_isomorphic_node_attr():
+    """
+    Isomorphic graphs with differing node attributes should yield different graph
+    hashes if the 'node_attr' argument is supplied and populated in the graph, and
+    there are no hash collisions.
+    The output should still be invariant to node-relabeling
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G1 = nx.erdos_renyi_graph(n, p * i, seed=400 + i)
+
+        for u in G1.nodes():
+            G1.nodes[u]["node_attr1"] = f"{u}-1"
+            G1.nodes[u]["node_attr2"] = f"{u}-2"
+
+        g1_hash_with_node_attr1 = nx.weisfeiler_lehman_graph_hash(
+            G1, node_attr="node_attr1"
+        )
+        g1_hash_with_node_attr2 = nx.weisfeiler_lehman_graph_hash(
+            G1, node_attr="node_attr2"
+        )
+        g1_hash_no_node_attr = nx.weisfeiler_lehman_graph_hash(G1, node_attr=None)
+
+        assert g1_hash_with_node_attr1 != g1_hash_no_node_attr
+        assert g1_hash_with_node_attr2 != g1_hash_no_node_attr
+        assert g1_hash_with_node_attr1 != g1_hash_with_node_attr2
+
+        G2 = nx.relabel_nodes(G1, {u: -1 * u for u in G1.nodes()})
+
+        g2_hash_with_node_attr1 = nx.weisfeiler_lehman_graph_hash(
+            G2, node_attr="node_attr1"
+        )
+        g2_hash_with_node_attr2 = nx.weisfeiler_lehman_graph_hash(
+            G2, node_attr="node_attr2"
+        )
+
+        assert g1_hash_with_node_attr1 == g2_hash_with_node_attr1
+        assert g1_hash_with_node_attr2 == g2_hash_with_node_attr2
+
+
+def test_missing_node_attr():
+    """
+    If the 'node_attr' argument is supplied but is missing from a node in the graph,
+    we should raise a KeyError
+    """
+    G = nx.Graph()
+    G.add_nodes_from([(1, {"node_attr1": "a"}), (2, {})])
+    G.add_edges_from([(1, 2), (2, 3), (3, 1), (1, 4)])
+    pytest.raises(KeyError, nx.weisfeiler_lehman_graph_hash, G, node_attr="node_attr1")
+
+
+def test_isomorphic_edge_attr_and_node_attr():
+    """
+    Isomorphic graphs with differing node attributes should yield different graph
+    hashes if the 'node_attr' and 'edge_attr' argument is supplied and populated in
+    the graph, and there are no hash collisions.
+    The output should still be invariant to node-relabeling
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G1 = nx.erdos_renyi_graph(n, p * i, seed=500 + i)
+
+        for u in G1.nodes():
+            G1.nodes[u]["node_attr1"] = f"{u}-1"
+            G1.nodes[u]["node_attr2"] = f"{u}-2"
+
+        for a, b in G1.edges:
+            G1[a][b]["edge_attr1"] = f"{a}-{b}-1"
+            G1[a][b]["edge_attr2"] = f"{a}-{b}-2"
+
+        g1_hash_edge1_node1 = nx.weisfeiler_lehman_graph_hash(
+            G1, edge_attr="edge_attr1", node_attr="node_attr1"
+        )
+        g1_hash_edge2_node2 = nx.weisfeiler_lehman_graph_hash(
+            G1, edge_attr="edge_attr2", node_attr="node_attr2"
+        )
+        g1_hash_edge1_node2 = nx.weisfeiler_lehman_graph_hash(
+            G1, edge_attr="edge_attr1", node_attr="node_attr2"
+        )
+        g1_hash_no_attr = nx.weisfeiler_lehman_graph_hash(G1)
+
+        assert g1_hash_edge1_node1 != g1_hash_no_attr
+        assert g1_hash_edge2_node2 != g1_hash_no_attr
+        assert g1_hash_edge1_node1 != g1_hash_edge2_node2
+        assert g1_hash_edge1_node2 != g1_hash_edge2_node2
+        assert g1_hash_edge1_node2 != g1_hash_edge1_node1
+
+        G2 = nx.relabel_nodes(G1, {u: -1 * u for u in G1.nodes()})
+
+        g2_hash_edge1_node1 = nx.weisfeiler_lehman_graph_hash(
+            G2, edge_attr="edge_attr1", node_attr="node_attr1"
+        )
+        g2_hash_edge2_node2 = nx.weisfeiler_lehman_graph_hash(
+            G2, edge_attr="edge_attr2", node_attr="node_attr2"
+        )
+
+        assert g1_hash_edge1_node1 == g2_hash_edge1_node1
+        assert g1_hash_edge2_node2 == g2_hash_edge2_node2
+
+
+def test_digest_size():
+    """
+    The hash string lengths should be as expected for a variety of graphs and
+    digest sizes
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G = nx.erdos_renyi_graph(n, p * i, seed=1000 + i)
+
+        h16 = nx.weisfeiler_lehman_graph_hash(G)
+        h32 = nx.weisfeiler_lehman_graph_hash(G, digest_size=32)
+
+        assert h16 != h32
+        assert len(h16) == 16 * 2
+        assert len(h32) == 32 * 2
+
+
+# Unit tests for the :func:`~networkx.weisfeiler_lehman_hash_subgraphs` function
+
+
+def is_subiteration(a, b):
+    """
+    returns True if that each hash sequence in 'a' is a prefix for
+    the corresponding sequence indexed by the same node in 'b'.
+    """
+    return all(b[node][: len(hashes)] == hashes for node, hashes in a.items())
+
+
+def hexdigest_sizes_correct(a, digest_size):
+    """
+    returns True if all hex digest sizes are the expected length in a node:subgraph-hashes
+    dictionary. Hex digest string length == 2 * bytes digest length since each pair of hex
+    digits encodes 1 byte (https://docs.python.org/3/library/hashlib.html)
+    """
+    hexdigest_size = digest_size * 2
+    list_digest_sizes_correct = lambda l: all(len(x) == hexdigest_size for x in l)
+    return all(list_digest_sizes_correct(hashes) for hashes in a.values())
+
+
+def test_empty_graph_subgraph_hash():
+    """ "
+    empty graphs should give empty dict subgraph hashes regardless of other params
+    """
+    G = nx.empty_graph()
+
+    subgraph_hashes1 = nx.weisfeiler_lehman_subgraph_hashes(G)
+    subgraph_hashes2 = nx.weisfeiler_lehman_subgraph_hashes(G, edge_attr="edge_attr")
+    subgraph_hashes3 = nx.weisfeiler_lehman_subgraph_hashes(G, node_attr="edge_attr")
+    subgraph_hashes4 = nx.weisfeiler_lehman_subgraph_hashes(G, iterations=2)
+    subgraph_hashes5 = nx.weisfeiler_lehman_subgraph_hashes(G, digest_size=64)
+
+    assert subgraph_hashes1 == {}
+    assert subgraph_hashes2 == {}
+    assert subgraph_hashes3 == {}
+    assert subgraph_hashes4 == {}
+    assert subgraph_hashes5 == {}
+
+
+def test_directed_subgraph_hash():
+    """
+    A directed graph with no bi-directional edges should yield different subgraph hashes
+    to the same graph taken as undirected, if all hashes don't collide.
+    """
+    r = 10
+    for i in range(r):
+        G_directed = nx.gn_graph(10 + r, seed=100 + i)
+        G_undirected = nx.to_undirected(G_directed)
+
+        directed_subgraph_hashes = nx.weisfeiler_lehman_subgraph_hashes(G_directed)
+        undirected_subgraph_hashes = nx.weisfeiler_lehman_subgraph_hashes(G_undirected)
+
+        assert directed_subgraph_hashes != undirected_subgraph_hashes
+
+
+def test_reversed_subgraph_hash():
+    """
+    A directed graph with no bi-directional edges should yield different subgraph hashes
+    to the same graph taken with edge directions reversed if there are no hash collisions.
+    Here we test a cycle graph which is the minimal counterexample
+    """
+    G = nx.cycle_graph(5, create_using=nx.DiGraph)
+    nx.set_node_attributes(G, {n: str(n) for n in G.nodes()}, name="label")
+
+    G_reversed = G.reverse()
+
+    h = nx.weisfeiler_lehman_subgraph_hashes(G, node_attr="label")
+    h_reversed = nx.weisfeiler_lehman_subgraph_hashes(G_reversed, node_attr="label")
+
+    assert h != h_reversed
+
+
+def test_isomorphic_subgraph_hash():
+    """
+    the subgraph hashes should be invariant to node-relabeling when the output is reindexed
+    by the same mapping and all hashes don't collide.
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G1 = nx.erdos_renyi_graph(n, p * i, seed=200 + i)
+        G2 = nx.relabel_nodes(G1, {u: -1 * u for u in G1.nodes()})
+
+        g1_subgraph_hashes = nx.weisfeiler_lehman_subgraph_hashes(G1)
+        g2_subgraph_hashes = nx.weisfeiler_lehman_subgraph_hashes(G2)
+
+        assert g1_subgraph_hashes == {-1 * k: v for k, v in g2_subgraph_hashes.items()}
+
+
+def test_isomorphic_edge_attr_subgraph_hash():
+    """
+    Isomorphic graphs with differing edge attributes should yield different subgraph
+    hashes if the 'edge_attr' argument is supplied and populated in the graph, and
+    all hashes don't collide.
+    The output should still be invariant to node-relabeling
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G1 = nx.erdos_renyi_graph(n, p * i, seed=300 + i)
+
+        for a, b in G1.edges:
+            G1[a][b]["edge_attr1"] = f"{a}-{b}-1"
+            G1[a][b]["edge_attr2"] = f"{a}-{b}-2"
+
+        g1_hash_with_edge_attr1 = nx.weisfeiler_lehman_subgraph_hashes(
+            G1, edge_attr="edge_attr1"
+        )
+        g1_hash_with_edge_attr2 = nx.weisfeiler_lehman_subgraph_hashes(
+            G1, edge_attr="edge_attr2"
+        )
+        g1_hash_no_edge_attr = nx.weisfeiler_lehman_subgraph_hashes(G1, edge_attr=None)
+
+        assert g1_hash_with_edge_attr1 != g1_hash_no_edge_attr
+        assert g1_hash_with_edge_attr2 != g1_hash_no_edge_attr
+        assert g1_hash_with_edge_attr1 != g1_hash_with_edge_attr2
+
+        G2 = nx.relabel_nodes(G1, {u: -1 * u for u in G1.nodes()})
+
+        g2_hash_with_edge_attr1 = nx.weisfeiler_lehman_subgraph_hashes(
+            G2, edge_attr="edge_attr1"
+        )
+        g2_hash_with_edge_attr2 = nx.weisfeiler_lehman_subgraph_hashes(
+            G2, edge_attr="edge_attr2"
+        )
+
+        assert g1_hash_with_edge_attr1 == {
+            -1 * k: v for k, v in g2_hash_with_edge_attr1.items()
+        }
+        assert g1_hash_with_edge_attr2 == {
+            -1 * k: v for k, v in g2_hash_with_edge_attr2.items()
+        }
+
+
+def test_missing_edge_attr_subgraph_hash():
+    """
+    If the 'edge_attr' argument is supplied but is missing from an edge in the graph,
+    we should raise a KeyError
+    """
+    G = nx.Graph()
+    G.add_edges_from([(1, 2, {"edge_attr1": "a"}), (1, 3, {})])
+    pytest.raises(
+        KeyError, nx.weisfeiler_lehman_subgraph_hashes, G, edge_attr="edge_attr1"
+    )
+
+
+def test_isomorphic_node_attr_subgraph_hash():
+    """
+    Isomorphic graphs with differing node attributes should yield different subgraph
+    hashes if the 'node_attr' argument is supplied and populated in the graph, and
+    all hashes don't collide.
+    The output should still be invariant to node-relabeling
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G1 = nx.erdos_renyi_graph(n, p * i, seed=400 + i)
+
+        for u in G1.nodes():
+            G1.nodes[u]["node_attr1"] = f"{u}-1"
+            G1.nodes[u]["node_attr2"] = f"{u}-2"
+
+        g1_hash_with_node_attr1 = nx.weisfeiler_lehman_subgraph_hashes(
+            G1, node_attr="node_attr1"
+        )
+        g1_hash_with_node_attr2 = nx.weisfeiler_lehman_subgraph_hashes(
+            G1, node_attr="node_attr2"
+        )
+        g1_hash_no_node_attr = nx.weisfeiler_lehman_subgraph_hashes(G1, node_attr=None)
+
+        assert g1_hash_with_node_attr1 != g1_hash_no_node_attr
+        assert g1_hash_with_node_attr2 != g1_hash_no_node_attr
+        assert g1_hash_with_node_attr1 != g1_hash_with_node_attr2
+
+        G2 = nx.relabel_nodes(G1, {u: -1 * u for u in G1.nodes()})
+
+        g2_hash_with_node_attr1 = nx.weisfeiler_lehman_subgraph_hashes(
+            G2, node_attr="node_attr1"
+        )
+        g2_hash_with_node_attr2 = nx.weisfeiler_lehman_subgraph_hashes(
+            G2, node_attr="node_attr2"
+        )
+
+        assert g1_hash_with_node_attr1 == {
+            -1 * k: v for k, v in g2_hash_with_node_attr1.items()
+        }
+        assert g1_hash_with_node_attr2 == {
+            -1 * k: v for k, v in g2_hash_with_node_attr2.items()
+        }
+
+
+def test_missing_node_attr_subgraph_hash():
+    """
+    If the 'node_attr' argument is supplied but is missing from a node in the graph,
+    we should raise a KeyError
+    """
+    G = nx.Graph()
+    G.add_nodes_from([(1, {"node_attr1": "a"}), (2, {})])
+    G.add_edges_from([(1, 2), (2, 3), (3, 1), (1, 4)])
+    pytest.raises(
+        KeyError, nx.weisfeiler_lehman_subgraph_hashes, G, node_attr="node_attr1"
+    )
+
+
+def test_isomorphic_edge_attr_and_node_attr_subgraph_hash():
+    """
+    Isomorphic graphs with differing node attributes should yield different subgraph
+    hashes if the 'node_attr' and 'edge_attr' argument is supplied and populated in
+    the graph, and all hashes don't collide
+    The output should still be invariant to node-relabeling
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G1 = nx.erdos_renyi_graph(n, p * i, seed=500 + i)
+
+        for u in G1.nodes():
+            G1.nodes[u]["node_attr1"] = f"{u}-1"
+            G1.nodes[u]["node_attr2"] = f"{u}-2"
+
+        for a, b in G1.edges:
+            G1[a][b]["edge_attr1"] = f"{a}-{b}-1"
+            G1[a][b]["edge_attr2"] = f"{a}-{b}-2"
+
+        g1_hash_edge1_node1 = nx.weisfeiler_lehman_subgraph_hashes(
+            G1, edge_attr="edge_attr1", node_attr="node_attr1"
+        )
+        g1_hash_edge2_node2 = nx.weisfeiler_lehman_subgraph_hashes(
+            G1, edge_attr="edge_attr2", node_attr="node_attr2"
+        )
+        g1_hash_edge1_node2 = nx.weisfeiler_lehman_subgraph_hashes(
+            G1, edge_attr="edge_attr1", node_attr="node_attr2"
+        )
+        g1_hash_no_attr = nx.weisfeiler_lehman_subgraph_hashes(G1)
+
+        assert g1_hash_edge1_node1 != g1_hash_no_attr
+        assert g1_hash_edge2_node2 != g1_hash_no_attr
+        assert g1_hash_edge1_node1 != g1_hash_edge2_node2
+        assert g1_hash_edge1_node2 != g1_hash_edge2_node2
+        assert g1_hash_edge1_node2 != g1_hash_edge1_node1
+
+        G2 = nx.relabel_nodes(G1, {u: -1 * u for u in G1.nodes()})
+
+        g2_hash_edge1_node1 = nx.weisfeiler_lehman_subgraph_hashes(
+            G2, edge_attr="edge_attr1", node_attr="node_attr1"
+        )
+        g2_hash_edge2_node2 = nx.weisfeiler_lehman_subgraph_hashes(
+            G2, edge_attr="edge_attr2", node_attr="node_attr2"
+        )
+
+        assert g1_hash_edge1_node1 == {
+            -1 * k: v for k, v in g2_hash_edge1_node1.items()
+        }
+        assert g1_hash_edge2_node2 == {
+            -1 * k: v for k, v in g2_hash_edge2_node2.items()
+        }
+
+
+def test_iteration_depth():
+    """
+    All nodes should have the correct number of subgraph hashes in the output when
+    using degree as initial node labels
+    Subsequent iteration depths for the same graph should be additive for each node
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G = nx.erdos_renyi_graph(n, p * i, seed=600 + i)
+
+        depth3 = nx.weisfeiler_lehman_subgraph_hashes(G, iterations=3)
+        depth4 = nx.weisfeiler_lehman_subgraph_hashes(G, iterations=4)
+        depth5 = nx.weisfeiler_lehman_subgraph_hashes(G, iterations=5)
+
+        assert all(len(hashes) == 3 for hashes in depth3.values())
+        assert all(len(hashes) == 4 for hashes in depth4.values())
+        assert all(len(hashes) == 5 for hashes in depth5.values())
+
+        assert is_subiteration(depth3, depth4)
+        assert is_subiteration(depth4, depth5)
+        assert is_subiteration(depth3, depth5)
+
+
+def test_iteration_depth_edge_attr():
+    """
+    All nodes should have the correct number of subgraph hashes in the output when
+    setting initial node labels empty and using an edge attribute when aggregating
+    neighborhoods.
+    Subsequent iteration depths for the same graph should be additive for each node
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G = nx.erdos_renyi_graph(n, p * i, seed=700 + i)
+
+        for a, b in G.edges:
+            G[a][b]["edge_attr1"] = f"{a}-{b}-1"
+
+        depth3 = nx.weisfeiler_lehman_subgraph_hashes(
+            G, edge_attr="edge_attr1", iterations=3
+        )
+        depth4 = nx.weisfeiler_lehman_subgraph_hashes(
+            G, edge_attr="edge_attr1", iterations=4
+        )
+        depth5 = nx.weisfeiler_lehman_subgraph_hashes(
+            G, edge_attr="edge_attr1", iterations=5
+        )
+
+        assert all(len(hashes) == 3 for hashes in depth3.values())
+        assert all(len(hashes) == 4 for hashes in depth4.values())
+        assert all(len(hashes) == 5 for hashes in depth5.values())
+
+        assert is_subiteration(depth3, depth4)
+        assert is_subiteration(depth4, depth5)
+        assert is_subiteration(depth3, depth5)
+
+
+def test_iteration_depth_node_attr():
+    """
+    All nodes should have the correct number of subgraph hashes in the output when
+    setting initial node labels to an attribute.
+    Subsequent iteration depths for the same graph should be additive for each node
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G = nx.erdos_renyi_graph(n, p * i, seed=800 + i)
+
+        for u in G.nodes():
+            G.nodes[u]["node_attr1"] = f"{u}-1"
+
+        depth3 = nx.weisfeiler_lehman_subgraph_hashes(
+            G, node_attr="node_attr1", iterations=3
+        )
+        depth4 = nx.weisfeiler_lehman_subgraph_hashes(
+            G, node_attr="node_attr1", iterations=4
+        )
+        depth5 = nx.weisfeiler_lehman_subgraph_hashes(
+            G, node_attr="node_attr1", iterations=5
+        )
+
+        assert all(len(hashes) == 3 for hashes in depth3.values())
+        assert all(len(hashes) == 4 for hashes in depth4.values())
+        assert all(len(hashes) == 5 for hashes in depth5.values())
+
+        assert is_subiteration(depth3, depth4)
+        assert is_subiteration(depth4, depth5)
+        assert is_subiteration(depth3, depth5)
+
+
+def test_iteration_depth_node_edge_attr():
+    """
+    All nodes should have the correct number of subgraph hashes in the output when
+    setting initial node labels to an attribute and also using an edge attribute when
+    aggregating neighborhoods.
+    Subsequent iteration depths for the same graph should be additive for each node
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G = nx.erdos_renyi_graph(n, p * i, seed=900 + i)
+
+        for u in G.nodes():
+            G.nodes[u]["node_attr1"] = f"{u}-1"
+
+        for a, b in G.edges:
+            G[a][b]["edge_attr1"] = f"{a}-{b}-1"
+
+        depth3 = nx.weisfeiler_lehman_subgraph_hashes(
+            G, edge_attr="edge_attr1", node_attr="node_attr1", iterations=3
+        )
+        depth4 = nx.weisfeiler_lehman_subgraph_hashes(
+            G, edge_attr="edge_attr1", node_attr="node_attr1", iterations=4
+        )
+        depth5 = nx.weisfeiler_lehman_subgraph_hashes(
+            G, edge_attr="edge_attr1", node_attr="node_attr1", iterations=5
+        )
+
+        assert all(len(hashes) == 3 for hashes in depth3.values())
+        assert all(len(hashes) == 4 for hashes in depth4.values())
+        assert all(len(hashes) == 5 for hashes in depth5.values())
+
+        assert is_subiteration(depth3, depth4)
+        assert is_subiteration(depth4, depth5)
+        assert is_subiteration(depth3, depth5)
+
+
+def test_digest_size_subgraph_hash():
+    """
+    The hash string lengths should be as expected for a variety of graphs and
+    digest sizes
+    """
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(1, r + 1):
+        G = nx.erdos_renyi_graph(n, p * i, seed=1000 + i)
+
+        digest_size16_hashes = nx.weisfeiler_lehman_subgraph_hashes(G)
+        digest_size32_hashes = nx.weisfeiler_lehman_subgraph_hashes(G, digest_size=32)
+
+        assert digest_size16_hashes != digest_size32_hashes
+
+        assert hexdigest_sizes_correct(digest_size16_hashes, 16)
+        assert hexdigest_sizes_correct(digest_size32_hashes, 32)
+
+
+def test_initial_node_labels_subgraph_hash():
+    """
+    Including the hashed initial label prepends an extra hash to the lists
+    """
+    G = nx.path_graph(5)
+    nx.set_node_attributes(G, {i: int(0 < i < 4) for i in G}, "label")
+    # initial node labels:
+    # 0--1--1--1--0
+
+    without_initial_label = nx.weisfeiler_lehman_subgraph_hashes(G, node_attr="label")
+    assert all(len(v) == 3 for v in without_initial_label.values())
+    # 3 different 1 hop nhds
+    assert len({v[0] for v in without_initial_label.values()}) == 3
+
+    with_initial_label = nx.weisfeiler_lehman_subgraph_hashes(
+        G, node_attr="label", include_initial_labels=True
+    )
+    assert all(len(v) == 4 for v in with_initial_label.values())
+    # 2 different initial labels
+    assert len({v[0] for v in with_initial_label.values()}) == 2
+
+    # check hashes match otherwise
+    for u in G:
+        for a, b in zip(
+            with_initial_label[u][1:], without_initial_label[u], strict=True
+        ):
+            assert a == b

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_graphical.py

@@ -0,0 +1,163 @@
+import pytest
+
+import networkx as nx
+
+
+def test_valid_degree_sequence1():
+    n = 100
+    p = 0.3
+    for i in range(10):
+        G = nx.erdos_renyi_graph(n, p)
+        deg = (d for n, d in G.degree())
+        assert nx.is_graphical(deg, method="eg")
+        assert nx.is_graphical(deg, method="hh")
+
+
+def test_valid_degree_sequence2():
+    n = 100
+    for i in range(10):
+        G = nx.barabasi_albert_graph(n, 1)
+        deg = (d for n, d in G.degree())
+        assert nx.is_graphical(deg, method="eg")
+        assert nx.is_graphical(deg, method="hh")
+
+
+def test_string_input():
+    pytest.raises(nx.NetworkXException, nx.is_graphical, [], "foo")
+    pytest.raises(nx.NetworkXException, nx.is_graphical, ["red"], "hh")
+    pytest.raises(nx.NetworkXException, nx.is_graphical, ["red"], "eg")
+
+
+def test_non_integer_input():
+    pytest.raises(nx.NetworkXException, nx.is_graphical, [72.5], "eg")
+    pytest.raises(nx.NetworkXException, nx.is_graphical, [72.5], "hh")
+
+
+def test_negative_input():
+    assert not nx.is_graphical([-1], "hh")
+    assert not nx.is_graphical([-1], "eg")
+
+
+class TestAtlas:
+    @classmethod
+    def setup_class(cls):
+        global atlas
+        from networkx.generators import atlas
+
+        cls.GAG = atlas.graph_atlas_g()
+
+    def test_atlas(self):
+        for graph in self.GAG:
+            deg = (d for n, d in graph.degree())
+            assert nx.is_graphical(deg, method="eg")
+            assert nx.is_graphical(deg, method="hh")
+
+
+def test_small_graph_true():
+    z = [5, 3, 3, 3, 3, 2, 2, 2, 1, 1, 1]
+    assert nx.is_graphical(z, method="hh")
+    assert nx.is_graphical(z, method="eg")
+    z = [10, 3, 3, 3, 3, 2, 2, 2, 2, 2, 2]
+    assert nx.is_graphical(z, method="hh")
+    assert nx.is_graphical(z, method="eg")
+    z = [1, 1, 1, 1, 1, 2, 2, 2, 3, 4]
+    assert nx.is_graphical(z, method="hh")
+    assert nx.is_graphical(z, method="eg")
+
+
+def test_small_graph_false():
+    z = [1000, 3, 3, 3, 3, 2, 2, 2, 1, 1, 1]
+    assert not nx.is_graphical(z, method="hh")
+    assert not nx.is_graphical(z, method="eg")
+    z = [6, 5, 4, 4, 2, 1, 1, 1]
+    assert not nx.is_graphical(z, method="hh")
+    assert not nx.is_graphical(z, method="eg")
+    z = [1, 1, 1, 1, 1, 1, 2, 2, 2, 3, 4]
+    assert not nx.is_graphical(z, method="hh")
+    assert not nx.is_graphical(z, method="eg")
+
+
+def test_directed_degree_sequence():
+    # Test a range of valid directed degree sequences
+    n, r = 100, 10
+    p = 1.0 / r
+    for i in range(r):
+        G = nx.erdos_renyi_graph(n, p * (i + 1), None, True)
+        din = (d for n, d in G.in_degree())
+        dout = (d for n, d in G.out_degree())
+        assert nx.is_digraphical(din, dout)
+
+
+def test_small_directed_sequences():
+    dout = [5, 3, 3, 3, 3, 2, 2, 2, 1, 1, 1]
+    din = [3, 3, 3, 3, 3, 2, 2, 2, 2, 2, 1]
+    assert nx.is_digraphical(din, dout)
+    # Test nongraphical directed sequence
+    dout = [1000, 3, 3, 3, 3, 2, 2, 2, 1, 1, 1]
+    din = [103, 102, 102, 102, 102, 102, 102, 102, 102, 102]
+    assert not nx.is_digraphical(din, dout)
+    # Test digraphical small sequence
+    dout = [1, 1, 1, 1, 1, 2, 2, 2, 3, 4]
+    din = [2, 2, 2, 2, 2, 2, 2, 2, 1, 1]
+    assert nx.is_digraphical(din, dout)
+    # Test nonmatching sum
+    din = [2, 2, 2, 2, 2, 2, 2, 2, 1, 1, 1]
+    assert not nx.is_digraphical(din, dout)
+    # Test for negative integer in sequence
+    din = [2, 2, 2, -2, 2, 2, 2, 2, 1, 1, 4]
+    assert not nx.is_digraphical(din, dout)
+    # Test for noninteger
+    din = dout = [1, 1, 1.1, 1]
+    assert not nx.is_digraphical(din, dout)
+    din = dout = [1, 1, "rer", 1]
+    assert not nx.is_digraphical(din, dout)
+
+
+def test_multi_sequence():
+    # Test nongraphical multi sequence
+    seq = [1000, 3, 3, 3, 3, 2, 2, 2, 1, 1]
+    assert not nx.is_multigraphical(seq)
+    # Test small graphical multi sequence
+    seq = [6, 5, 4, 4, 2, 1, 1, 1]
+    assert nx.is_multigraphical(seq)
+    # Test for negative integer in sequence
+    seq = [6, 5, 4, -4, 2, 1, 1, 1]
+    assert not nx.is_multigraphical(seq)
+    # Test for sequence with odd sum
+    seq = [1, 1, 1, 1, 1, 1, 2, 2, 2, 3, 4]
+    assert not nx.is_multigraphical(seq)
+    # Test for noninteger
+    seq = [1, 1, 1.1, 1]
+    assert not nx.is_multigraphical(seq)
+    seq = [1, 1, "rer", 1]
+    assert not nx.is_multigraphical(seq)
+
+
+def test_pseudo_sequence():
+    # Test small valid pseudo sequence
+    seq = [1000, 3, 3, 3, 3, 2, 2, 2, 1, 1]
+    assert nx.is_pseudographical(seq)
+    # Test for sequence with odd sum
+    seq = [1000, 3, 3, 3, 3, 2, 2, 2, 1, 1, 1]
+    assert not nx.is_pseudographical(seq)
+    # Test for negative integer in sequence
+    seq = [1000, 3, 3, 3, 3, 2, 2, -2, 1, 1]
+    assert not nx.is_pseudographical(seq)
+    # Test for noninteger
+    seq = [1, 1, 1.1, 1]
+    assert not nx.is_pseudographical(seq)
+    seq = [1, 1, "rer", 1]
+    assert not nx.is_pseudographical(seq)
+
+
+def test_numpy_degree_sequence():
+    np = pytest.importorskip("numpy")
+    ds = np.array([1, 2, 2, 2, 1], dtype=np.int64)
+    assert nx.is_graphical(ds, "eg")
+    assert nx.is_graphical(ds, "hh")
+    ds = np.array([1, 2, 2, 2, 1], dtype=np.float64)
+    assert nx.is_graphical(ds, "eg")
+    assert nx.is_graphical(ds, "hh")
+    ds = np.array([1.1, 2, 2, 2, 1], dtype=np.float64)
+    pytest.raises(nx.NetworkXException, nx.is_graphical, ds, "eg")
+    pytest.raises(nx.NetworkXException, nx.is_graphical, ds, "hh")

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_isolate.py

@@ -0,0 +1,26 @@
+"""Unit tests for the :mod:`networkx.algorithms.isolates` module."""
+
+import networkx as nx
+
+
+def test_is_isolate():
+    G = nx.Graph()
+    G.add_edge(0, 1)
+    G.add_node(2)
+    assert not nx.is_isolate(G, 0)
+    assert not nx.is_isolate(G, 1)
+    assert nx.is_isolate(G, 2)
+
+
+def test_isolates():
+    G = nx.Graph()
+    G.add_edge(0, 1)
+    G.add_nodes_from([2, 3])
+    assert sorted(nx.isolates(G)) == [2, 3]
+
+
+def test_number_of_isolates():
+    G = nx.Graph()
+    G.add_edge(0, 1)
+    G.add_nodes_from([2, 3])
+    assert nx.number_of_isolates(G) == 2

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_link_prediction.py

@@ -0,0 +1,586 @@
+import math
+from functools import partial
+
+import pytest
+
+import networkx as nx
+
+
+def _test_func(G, ebunch, expected, predict_func, **kwargs):
+    result = predict_func(G, ebunch, **kwargs)
+    exp_dict = {tuple(sorted([u, v])): score for u, v, score in expected}
+    res_dict = {tuple(sorted([u, v])): score for u, v, score in result}
+
+    assert len(exp_dict) == len(res_dict)
+    for p in exp_dict:
+        assert exp_dict[p] == pytest.approx(res_dict[p], abs=1e-7)
+
+
+class TestResourceAllocationIndex:
+    @classmethod
+    def setup_class(cls):
+        cls.func = staticmethod(nx.resource_allocation_index)
+        cls.test = partial(_test_func, predict_func=cls.func)
+
+    def test_K5(self):
+        G = nx.complete_graph(5)
+        self.test(G, [(0, 1)], [(0, 1, 0.75)])
+
+    def test_P3(self):
+        G = nx.path_graph(3)
+        self.test(G, [(0, 2)], [(0, 2, 0.5)])
+
+    def test_S4(self):
+        G = nx.star_graph(4)
+        self.test(G, [(1, 2)], [(1, 2, 0.25)])
+
+    @pytest.mark.parametrize("graph_type", (nx.DiGraph, nx.MultiGraph, nx.MultiDiGraph))
+    def test_notimplemented(self, graph_type):
+        assert pytest.raises(
+            nx.NetworkXNotImplemented, self.func, graph_type([(0, 1), (1, 2)]), [(0, 2)]
+        )
+
+    def test_node_not_found(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        assert pytest.raises(nx.NodeNotFound, self.func, G, [(0, 4)])
+
+    def test_no_common_neighbor(self):
+        G = nx.Graph()
+        G.add_nodes_from([0, 1])
+        self.test(G, [(0, 1)], [(0, 1, 0)])
+
+    def test_equal_nodes(self):
+        G = nx.complete_graph(4)
+        self.test(G, [(0, 0)], [(0, 0, 1)])
+
+    def test_all_nonexistent_edges(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        self.test(G, None, [(0, 3, 0.5), (1, 2, 0.5), (1, 3, 0)])
+
+
+class TestJaccardCoefficient:
+    @classmethod
+    def setup_class(cls):
+        cls.func = staticmethod(nx.jaccard_coefficient)
+        cls.test = partial(_test_func, predict_func=cls.func)
+
+    def test_K5(self):
+        G = nx.complete_graph(5)
+        self.test(G, [(0, 1)], [(0, 1, 0.6)])
+
+    def test_P4(self):
+        G = nx.path_graph(4)
+        self.test(G, [(0, 2)], [(0, 2, 0.5)])
+
+    @pytest.mark.parametrize("graph_type", (nx.DiGraph, nx.MultiGraph, nx.MultiDiGraph))
+    def test_notimplemented(self, graph_type):
+        assert pytest.raises(
+            nx.NetworkXNotImplemented, self.func, graph_type([(0, 1), (1, 2)]), [(0, 2)]
+        )
+
+    def test_node_not_found(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        assert pytest.raises(nx.NodeNotFound, self.func, G, [(0, 4)])
+
+    def test_no_common_neighbor(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (2, 3)])
+        self.test(G, [(0, 2)], [(0, 2, 0)])
+
+    def test_isolated_nodes(self):
+        G = nx.Graph()
+        G.add_nodes_from([0, 1])
+        self.test(G, [(0, 1)], [(0, 1, 0)])
+
+    def test_all_nonexistent_edges(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        self.test(G, None, [(0, 3, 0.5), (1, 2, 0.5), (1, 3, 0)])
+
+
+class TestAdamicAdarIndex:
+    @classmethod
+    def setup_class(cls):
+        cls.func = staticmethod(nx.adamic_adar_index)
+        cls.test = partial(_test_func, predict_func=cls.func)
+
+    def test_K5(self):
+        G = nx.complete_graph(5)
+        self.test(G, [(0, 1)], [(0, 1, 3 / math.log(4))])
+
+    def test_P3(self):
+        G = nx.path_graph(3)
+        self.test(G, [(0, 2)], [(0, 2, 1 / math.log(2))])
+
+    def test_S4(self):
+        G = nx.star_graph(4)
+        self.test(G, [(1, 2)], [(1, 2, 1 / math.log(4))])
+
+    @pytest.mark.parametrize("graph_type", (nx.DiGraph, nx.MultiGraph, nx.MultiDiGraph))
+    def test_notimplemented(self, graph_type):
+        assert pytest.raises(
+            nx.NetworkXNotImplemented, self.func, graph_type([(0, 1), (1, 2)]), [(0, 2)]
+        )
+
+    def test_node_not_found(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        assert pytest.raises(nx.NodeNotFound, self.func, G, [(0, 4)])
+
+    def test_no_common_neighbor(self):
+        G = nx.Graph()
+        G.add_nodes_from([0, 1])
+        self.test(G, [(0, 1)], [(0, 1, 0)])
+
+    def test_equal_nodes(self):
+        G = nx.complete_graph(4)
+        self.test(G, [(0, 0)], [(0, 0, 3 / math.log(3))])
+
+    def test_all_nonexistent_edges(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        self.test(
+            G, None, [(0, 3, 1 / math.log(2)), (1, 2, 1 / math.log(2)), (1, 3, 0)]
+        )
+
+
+class TestCommonNeighborCentrality:
+    @classmethod
+    def setup_class(cls):
+        cls.func = staticmethod(nx.common_neighbor_centrality)
+        cls.test = partial(_test_func, predict_func=cls.func)
+
+    def test_K5(self):
+        G = nx.complete_graph(5)
+        self.test(G, [(0, 1)], [(0, 1, 3.0)], alpha=1)
+        self.test(G, [(0, 1)], [(0, 1, 5.0)], alpha=0)
+
+    def test_P3(self):
+        G = nx.path_graph(3)
+        self.test(G, [(0, 2)], [(0, 2, 1.25)], alpha=0.5)
+
+    def test_S4(self):
+        G = nx.star_graph(4)
+        self.test(G, [(1, 2)], [(1, 2, 1.75)], alpha=0.5)
+
+    @pytest.mark.parametrize("graph_type", (nx.DiGraph, nx.MultiGraph, nx.MultiDiGraph))
+    def test_notimplemented(self, graph_type):
+        assert pytest.raises(
+            nx.NetworkXNotImplemented, self.func, graph_type([(0, 1), (1, 2)]), [(0, 2)]
+        )
+
+    def test_node_u_not_found(self):
+        G = nx.Graph()
+        G.add_edges_from([(1, 3), (2, 3)])
+        assert pytest.raises(nx.NodeNotFound, self.func, G, [(0, 1)])
+
+    def test_node_v_not_found(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        assert pytest.raises(nx.NodeNotFound, self.func, G, [(0, 4)])
+
+    def test_no_common_neighbor(self):
+        G = nx.Graph()
+        G.add_nodes_from([0, 1])
+        self.test(G, [(0, 1)], [(0, 1, 0)])
+
+    def test_equal_nodes(self):
+        G = nx.complete_graph(4)
+        assert pytest.raises(nx.NetworkXAlgorithmError, self.test, G, [(0, 0)], [])
+
+    def test_equal_nodes_with_alpha_one_raises_error(self):
+        G = nx.complete_graph(4)
+        assert pytest.raises(
+            nx.NetworkXAlgorithmError, self.test, G, [(0, 0)], [], alpha=1.0
+        )
+
+    def test_all_nonexistent_edges(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        self.test(G, None, [(0, 3, 1.5), (1, 2, 1.5), (1, 3, 2 / 3)], alpha=0.5)
+
+
+class TestPreferentialAttachment:
+    @classmethod
+    def setup_class(cls):
+        cls.func = staticmethod(nx.preferential_attachment)
+        cls.test = partial(_test_func, predict_func=cls.func)
+
+    def test_K5(self):
+        G = nx.complete_graph(5)
+        self.test(G, [(0, 1)], [(0, 1, 16)])
+
+    def test_P3(self):
+        G = nx.path_graph(3)
+        self.test(G, [(0, 1)], [(0, 1, 2)])
+
+    def test_S4(self):
+        G = nx.star_graph(4)
+        self.test(G, [(0, 2)], [(0, 2, 4)])
+
+    @pytest.mark.parametrize("graph_type", (nx.DiGraph, nx.MultiGraph, nx.MultiDiGraph))
+    def test_notimplemented(self, graph_type):
+        assert pytest.raises(
+            nx.NetworkXNotImplemented, self.func, graph_type([(0, 1), (1, 2)]), [(0, 2)]
+        )
+
+    def test_node_not_found(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        assert pytest.raises(nx.NodeNotFound, self.func, G, [(0, 4)])
+
+    def test_zero_degrees(self):
+        G = nx.Graph()
+        G.add_nodes_from([0, 1])
+        self.test(G, [(0, 1)], [(0, 1, 0)])
+
+    def test_all_nonexistent_edges(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        self.test(G, None, [(0, 3, 2), (1, 2, 2), (1, 3, 1)])
+
+
+class TestCNSoundarajanHopcroft:
+    @classmethod
+    def setup_class(cls):
+        cls.func = staticmethod(nx.cn_soundarajan_hopcroft)
+        cls.test = partial(_test_func, predict_func=cls.func, community="community")
+
+    def test_K5(self):
+        G = nx.complete_graph(5)
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        G.nodes[4]["community"] = 1
+        self.test(G, [(0, 1)], [(0, 1, 5)])
+
+    def test_P3(self):
+        G = nx.path_graph(3)
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 0
+        self.test(G, [(0, 2)], [(0, 2, 1)])
+
+    def test_S4(self):
+        G = nx.star_graph(4)
+        G.nodes[0]["community"] = 1
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 1
+        G.nodes[3]["community"] = 0
+        G.nodes[4]["community"] = 0
+        self.test(G, [(1, 2)], [(1, 2, 2)])
+
+    @pytest.mark.parametrize("graph_type", (nx.DiGraph, nx.MultiGraph, nx.MultiDiGraph))
+    def test_notimplemented(self, graph_type):
+        G = graph_type([(0, 1), (1, 2)])
+        G.add_nodes_from([0, 1, 2], community=0)
+        assert pytest.raises(nx.NetworkXNotImplemented, self.func, G, [(0, 2)])
+
+    def test_node_not_found(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        assert pytest.raises(nx.NodeNotFound, self.func, G, [(0, 4)])
+
+    def test_no_common_neighbor(self):
+        G = nx.Graph()
+        G.add_nodes_from([0, 1])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        self.test(G, [(0, 1)], [(0, 1, 0)])
+
+    def test_equal_nodes(self):
+        G = nx.complete_graph(3)
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        self.test(G, [(0, 0)], [(0, 0, 4)])
+
+    def test_different_community(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 1
+        self.test(G, [(0, 3)], [(0, 3, 2)])
+
+    def test_no_community_information(self):
+        G = nx.complete_graph(5)
+        assert pytest.raises(nx.NetworkXAlgorithmError, list, self.func(G, [(0, 1)]))
+
+    def test_insufficient_community_information(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[3]["community"] = 0
+        assert pytest.raises(nx.NetworkXAlgorithmError, list, self.func(G, [(0, 3)]))
+
+    def test_sufficient_community_information(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (1, 2), (1, 3), (2, 4), (3, 4), (4, 5)])
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        G.nodes[4]["community"] = 0
+        self.test(G, [(1, 4)], [(1, 4, 4)])
+
+    def test_custom_community_attribute_name(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 3)])
+        G.nodes[0]["cmty"] = 0
+        G.nodes[1]["cmty"] = 0
+        G.nodes[2]["cmty"] = 0
+        G.nodes[3]["cmty"] = 1
+        self.test(G, [(0, 3)], [(0, 3, 2)], community="cmty")
+
+    def test_all_nonexistent_edges(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        self.test(G, None, [(0, 3, 2), (1, 2, 1), (1, 3, 0)])
+
+
+class TestRAIndexSoundarajanHopcroft:
+    @classmethod
+    def setup_class(cls):
+        cls.func = staticmethod(nx.ra_index_soundarajan_hopcroft)
+        cls.test = partial(_test_func, predict_func=cls.func, community="community")
+
+    def test_K5(self):
+        G = nx.complete_graph(5)
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        G.nodes[4]["community"] = 1
+        self.test(G, [(0, 1)], [(0, 1, 0.5)])
+
+    def test_P3(self):
+        G = nx.path_graph(3)
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 0
+        self.test(G, [(0, 2)], [(0, 2, 0)])
+
+    def test_S4(self):
+        G = nx.star_graph(4)
+        G.nodes[0]["community"] = 1
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 1
+        G.nodes[3]["community"] = 0
+        G.nodes[4]["community"] = 0
+        self.test(G, [(1, 2)], [(1, 2, 0.25)])
+
+    @pytest.mark.parametrize("graph_type", (nx.DiGraph, nx.MultiGraph, nx.MultiDiGraph))
+    def test_notimplemented(self, graph_type):
+        G = graph_type([(0, 1), (1, 2)])
+        G.add_nodes_from([0, 1, 2], community=0)
+        assert pytest.raises(nx.NetworkXNotImplemented, self.func, G, [(0, 2)])
+
+    def test_node_not_found(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        assert pytest.raises(nx.NodeNotFound, self.func, G, [(0, 4)])
+
+    def test_no_common_neighbor(self):
+        G = nx.Graph()
+        G.add_nodes_from([0, 1])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        self.test(G, [(0, 1)], [(0, 1, 0)])
+
+    def test_equal_nodes(self):
+        G = nx.complete_graph(3)
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        self.test(G, [(0, 0)], [(0, 0, 1)])
+
+    def test_different_community(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 1
+        self.test(G, [(0, 3)], [(0, 3, 0)])
+
+    def test_no_community_information(self):
+        G = nx.complete_graph(5)
+        assert pytest.raises(nx.NetworkXAlgorithmError, list, self.func(G, [(0, 1)]))
+
+    def test_insufficient_community_information(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[3]["community"] = 0
+        assert pytest.raises(nx.NetworkXAlgorithmError, list, self.func(G, [(0, 3)]))
+
+    def test_sufficient_community_information(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (1, 2), (1, 3), (2, 4), (3, 4), (4, 5)])
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        G.nodes[4]["community"] = 0
+        self.test(G, [(1, 4)], [(1, 4, 1)])
+
+    def test_custom_community_attribute_name(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 3)])
+        G.nodes[0]["cmty"] = 0
+        G.nodes[1]["cmty"] = 0
+        G.nodes[2]["cmty"] = 0
+        G.nodes[3]["cmty"] = 1
+        self.test(G, [(0, 3)], [(0, 3, 0)], community="cmty")
+
+    def test_all_nonexistent_edges(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        self.test(G, None, [(0, 3, 0.5), (1, 2, 0), (1, 3, 0)])
+
+
+class TestWithinInterCluster:
+    @classmethod
+    def setup_class(cls):
+        cls.delta = 0.001
+        cls.func = staticmethod(nx.within_inter_cluster)
+        cls.test = partial(
+            _test_func, predict_func=cls.func, delta=cls.delta, community="community"
+        )
+
+    def test_K5(self):
+        G = nx.complete_graph(5)
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        G.nodes[4]["community"] = 1
+        self.test(G, [(0, 1)], [(0, 1, 2 / (1 + self.delta))])
+
+    def test_P3(self):
+        G = nx.path_graph(3)
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 0
+        self.test(G, [(0, 2)], [(0, 2, 0)])
+
+    def test_S4(self):
+        G = nx.star_graph(4)
+        G.nodes[0]["community"] = 1
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 1
+        G.nodes[3]["community"] = 0
+        G.nodes[4]["community"] = 0
+        self.test(G, [(1, 2)], [(1, 2, 1 / self.delta)])
+
+    @pytest.mark.parametrize("graph_type", (nx.DiGraph, nx.MultiGraph, nx.MultiDiGraph))
+    def test_notimplemented(self, graph_type):
+        G = graph_type([(0, 1), (1, 2)])
+        G.add_nodes_from([0, 1, 2], community=0)
+        assert pytest.raises(nx.NetworkXNotImplemented, self.func, G, [(0, 2)])
+
+    def test_node_not_found(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        assert pytest.raises(nx.NodeNotFound, self.func, G, [(0, 4)])
+
+    def test_no_common_neighbor(self):
+        G = nx.Graph()
+        G.add_nodes_from([0, 1])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        self.test(G, [(0, 1)], [(0, 1, 0)])
+
+    def test_equal_nodes(self):
+        G = nx.complete_graph(3)
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        self.test(G, [(0, 0)], [(0, 0, 2 / self.delta)])
+
+    def test_different_community(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 1
+        self.test(G, [(0, 3)], [(0, 3, 0)])
+
+    def test_no_inter_cluster_common_neighbor(self):
+        G = nx.complete_graph(4)
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        self.test(G, [(0, 3)], [(0, 3, 2 / self.delta)])
+
+    def test_no_community_information(self):
+        G = nx.complete_graph(5)
+        assert pytest.raises(nx.NetworkXAlgorithmError, list, self.func(G, [(0, 1)]))
+
+    def test_insufficient_community_information(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 0
+        G.nodes[3]["community"] = 0
+        assert pytest.raises(nx.NetworkXAlgorithmError, list, self.func(G, [(0, 3)]))
+
+    def test_sufficient_community_information(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (1, 2), (1, 3), (2, 4), (3, 4), (4, 5)])
+        G.nodes[1]["community"] = 0
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        G.nodes[4]["community"] = 0
+        self.test(G, [(1, 4)], [(1, 4, 2 / self.delta)])
+
+    def test_invalid_delta(self):
+        G = nx.complete_graph(3)
+        G.add_nodes_from([0, 1, 2], community=0)
+        assert pytest.raises(nx.NetworkXAlgorithmError, self.func, G, [(0, 1)], 0)
+        assert pytest.raises(nx.NetworkXAlgorithmError, self.func, G, [(0, 1)], -0.5)
+
+    def test_custom_community_attribute_name(self):
+        G = nx.complete_graph(4)
+        G.nodes[0]["cmty"] = 0
+        G.nodes[1]["cmty"] = 0
+        G.nodes[2]["cmty"] = 0
+        G.nodes[3]["cmty"] = 0
+        self.test(G, [(0, 3)], [(0, 3, 2 / self.delta)], community="cmty")
+
+    def test_all_nonexistent_edges(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (2, 3)])
+        G.nodes[0]["community"] = 0
+        G.nodes[1]["community"] = 1
+        G.nodes[2]["community"] = 0
+        G.nodes[3]["community"] = 0
+        self.test(G, None, [(0, 3, 1 / self.delta), (1, 2, 0), (1, 3, 0)])

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_matching.py

@@ -0,0 +1,605 @@
+import math
+from itertools import permutations
+
+from pytest import raises
+
+import networkx as nx
+from networkx.algorithms.matching import matching_dict_to_set
+from networkx.utils import edges_equal
+
+
+class TestMaxWeightMatching:
+    """Unit tests for the
+    :func:`~networkx.algorithms.matching.max_weight_matching` function.
+
+    """
+
+    def test_trivial1(self):
+        """Empty graph"""
+        G = nx.Graph()
+        assert nx.max_weight_matching(G) == set()
+        assert nx.min_weight_matching(G) == set()
+
+    def test_selfloop(self):
+        G = nx.Graph()
+        G.add_edge(0, 0, weight=100)
+        assert nx.max_weight_matching(G) == set()
+        assert nx.min_weight_matching(G) == set()
+
+    def test_single_edge(self):
+        G = nx.Graph()
+        G.add_edge(0, 1)
+        assert edges_equal(
+            nx.max_weight_matching(G), matching_dict_to_set({0: 1, 1: 0})
+        )
+        assert edges_equal(
+            nx.min_weight_matching(G), matching_dict_to_set({0: 1, 1: 0})
+        )
+
+    def test_two_path(self):
+        G = nx.Graph()
+        G.add_edge("one", "two", weight=10)
+        G.add_edge("two", "three", weight=11)
+        assert edges_equal(
+            nx.max_weight_matching(G),
+            matching_dict_to_set({"three": "two", "two": "three"}),
+        )
+        assert edges_equal(
+            nx.min_weight_matching(G),
+            matching_dict_to_set({"one": "two", "two": "one"}),
+        )
+
+    def test_path(self):
+        G = nx.Graph()
+        G.add_edge(1, 2, weight=5)
+        G.add_edge(2, 3, weight=11)
+        G.add_edge(3, 4, weight=5)
+        assert edges_equal(
+            nx.max_weight_matching(G), matching_dict_to_set({2: 3, 3: 2})
+        )
+        assert edges_equal(
+            nx.max_weight_matching(G, 1), matching_dict_to_set({1: 2, 2: 1, 3: 4, 4: 3})
+        )
+        assert edges_equal(
+            nx.min_weight_matching(G), matching_dict_to_set({1: 2, 3: 4})
+        )
+        assert edges_equal(
+            nx.min_weight_matching(G, 1), matching_dict_to_set({1: 2, 3: 4})
+        )
+
+    def test_square(self):
+        G = nx.Graph()
+        G.add_edge(1, 4, weight=2)
+        G.add_edge(2, 3, weight=2)
+        G.add_edge(1, 2, weight=1)
+        G.add_edge(3, 4, weight=4)
+        assert edges_equal(
+            nx.max_weight_matching(G), matching_dict_to_set({1: 2, 3: 4})
+        )
+        assert edges_equal(
+            nx.min_weight_matching(G), matching_dict_to_set({1: 4, 2: 3})
+        )
+
+    def test_edge_attribute_name(self):
+        G = nx.Graph()
+        G.add_edge("one", "two", weight=10, abcd=11)
+        G.add_edge("two", "three", weight=11, abcd=10)
+        assert edges_equal(
+            nx.max_weight_matching(G, weight="abcd"),
+            matching_dict_to_set({"one": "two", "two": "one"}),
+        )
+        assert edges_equal(
+            nx.min_weight_matching(G, weight="abcd"),
+            matching_dict_to_set({"three": "two"}),
+        )
+
+    def test_floating_point_weights(self):
+        G = nx.Graph()
+        G.add_edge(1, 2, weight=math.pi)
+        G.add_edge(2, 3, weight=math.exp(1))
+        G.add_edge(1, 3, weight=3.0)
+        G.add_edge(1, 4, weight=math.sqrt(2.0))
+        assert edges_equal(
+            nx.max_weight_matching(G), matching_dict_to_set({1: 4, 2: 3, 3: 2, 4: 1})
+        )
+        assert edges_equal(
+            nx.min_weight_matching(G), matching_dict_to_set({1: 4, 2: 3, 3: 2, 4: 1})
+        )
+
+    def test_negative_weights(self):
+        G = nx.Graph()
+        G.add_edge(1, 2, weight=2)
+        G.add_edge(1, 3, weight=-2)
+        G.add_edge(2, 3, weight=1)
+        G.add_edge(2, 4, weight=-1)
+        G.add_edge(3, 4, weight=-6)
+        assert edges_equal(
+            nx.max_weight_matching(G), matching_dict_to_set({1: 2, 2: 1})
+        )
+        assert edges_equal(
+            nx.max_weight_matching(G, maxcardinality=True),
+            matching_dict_to_set({1: 3, 2: 4, 3: 1, 4: 2}),
+        )
+        assert edges_equal(
+            nx.min_weight_matching(G), matching_dict_to_set({1: 2, 3: 4})
+        )
+
+    def test_s_blossom(self):
+        """Create S-blossom and use it for augmentation:"""
+        G = nx.Graph()
+        G.add_weighted_edges_from([(1, 2, 8), (1, 3, 9), (2, 3, 10), (3, 4, 7)])
+        answer = matching_dict_to_set({1: 2, 2: 1, 3: 4, 4: 3})
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+        G.add_weighted_edges_from([(1, 6, 5), (4, 5, 6)])
+        answer = matching_dict_to_set({1: 6, 2: 3, 3: 2, 4: 5, 5: 4, 6: 1})
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+    def test_s_t_blossom(self):
+        """Create S-blossom, relabel as T-blossom, use for augmentation:"""
+        G = nx.Graph()
+        G.add_weighted_edges_from(
+            [(1, 2, 9), (1, 3, 8), (2, 3, 10), (1, 4, 5), (4, 5, 4), (1, 6, 3)]
+        )
+        answer = matching_dict_to_set({1: 6, 2: 3, 3: 2, 4: 5, 5: 4, 6: 1})
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+        G.add_edge(4, 5, weight=3)
+        G.add_edge(1, 6, weight=4)
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+        G.remove_edge(1, 6)
+        G.add_edge(3, 6, weight=4)
+        answer = matching_dict_to_set({1: 2, 2: 1, 3: 6, 4: 5, 5: 4, 6: 3})
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+    def test_nested_s_blossom(self):
+        """Create nested S-blossom, use for augmentation:"""
+
+        G = nx.Graph()
+        G.add_weighted_edges_from(
+            [
+                (1, 2, 9),
+                (1, 3, 9),
+                (2, 3, 10),
+                (2, 4, 8),
+                (3, 5, 8),
+                (4, 5, 10),
+                (5, 6, 6),
+            ]
+        )
+        dict_format = {1: 3, 2: 4, 3: 1, 4: 2, 5: 6, 6: 5}
+        expected = {frozenset(e) for e in matching_dict_to_set(dict_format)}
+        answer = {frozenset(e) for e in nx.max_weight_matching(G)}
+        assert answer == expected
+        answer = {frozenset(e) for e in nx.min_weight_matching(G)}
+        assert answer == expected
+
+    def test_nested_s_blossom_relabel(self):
+        """Create S-blossom, relabel as S, include in nested S-blossom:"""
+        G = nx.Graph()
+        G.add_weighted_edges_from(
+            [
+                (1, 2, 10),
+                (1, 7, 10),
+                (2, 3, 12),
+                (3, 4, 20),
+                (3, 5, 20),
+                (4, 5, 25),
+                (5, 6, 10),
+                (6, 7, 10),
+                (7, 8, 8),
+            ]
+        )
+        answer = matching_dict_to_set({1: 2, 2: 1, 3: 4, 4: 3, 5: 6, 6: 5, 7: 8, 8: 7})
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+    def test_nested_s_blossom_expand(self):
+        """Create nested S-blossom, augment, expand recursively:"""
+        G = nx.Graph()
+        G.add_weighted_edges_from(
+            [
+                (1, 2, 8),
+                (1, 3, 8),
+                (2, 3, 10),
+                (2, 4, 12),
+                (3, 5, 12),
+                (4, 5, 14),
+                (4, 6, 12),
+                (5, 7, 12),
+                (6, 7, 14),
+                (7, 8, 12),
+            ]
+        )
+        answer = matching_dict_to_set({1: 2, 2: 1, 3: 5, 4: 6, 5: 3, 6: 4, 7: 8, 8: 7})
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+    def test_s_blossom_relabel_expand(self):
+        """Create S-blossom, relabel as T, expand:"""
+        G = nx.Graph()
+        G.add_weighted_edges_from(
+            [
+                (1, 2, 23),
+                (1, 5, 22),
+                (1, 6, 15),
+                (2, 3, 25),
+                (3, 4, 22),
+                (4, 5, 25),
+                (4, 8, 14),
+                (5, 7, 13),
+            ]
+        )
+        answer = matching_dict_to_set({1: 6, 2: 3, 3: 2, 4: 8, 5: 7, 6: 1, 7: 5, 8: 4})
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+    def test_nested_s_blossom_relabel_expand(self):
+        """Create nested S-blossom, relabel as T, expand:"""
+        G = nx.Graph()
+        G.add_weighted_edges_from(
+            [
+                (1, 2, 19),
+                (1, 3, 20),
+                (1, 8, 8),
+                (2, 3, 25),
+                (2, 4, 18),
+                (3, 5, 18),
+                (4, 5, 13),
+                (4, 7, 7),
+                (5, 6, 7),
+            ]
+        )
+        answer = matching_dict_to_set({1: 8, 2: 3, 3: 2, 4: 7, 5: 6, 6: 5, 7: 4, 8: 1})
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+    def test_nasty_blossom1(self):
+        """Create blossom, relabel as T in more than one way, expand,
+        augment:
+        """
+        G = nx.Graph()
+        G.add_weighted_edges_from(
+            [
+                (1, 2, 45),
+                (1, 5, 45),
+                (2, 3, 50),
+                (3, 4, 45),
+                (4, 5, 50),
+                (1, 6, 30),
+                (3, 9, 35),
+                (4, 8, 35),
+                (5, 7, 26),
+                (9, 10, 5),
+            ]
+        )
+        ansdict = {1: 6, 2: 3, 3: 2, 4: 8, 5: 7, 6: 1, 7: 5, 8: 4, 9: 10, 10: 9}
+        answer = matching_dict_to_set(ansdict)
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+    def test_nasty_blossom2(self):
+        """Again but slightly different:"""
+        G = nx.Graph()
+        G.add_weighted_edges_from(
+            [
+                (1, 2, 45),
+                (1, 5, 45),
+                (2, 3, 50),
+                (3, 4, 45),
+                (4, 5, 50),
+                (1, 6, 30),
+                (3, 9, 35),
+                (4, 8, 26),
+                (5, 7, 40),
+                (9, 10, 5),
+            ]
+        )
+        ans = {1: 6, 2: 3, 3: 2, 4: 8, 5: 7, 6: 1, 7: 5, 8: 4, 9: 10, 10: 9}
+        answer = matching_dict_to_set(ans)
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+    def test_nasty_blossom_least_slack(self):
+        """Create blossom, relabel as T, expand such that a new
+        least-slack S-to-free dge is produced, augment:
+        """
+        G = nx.Graph()
+        G.add_weighted_edges_from(
+            [
+                (1, 2, 45),
+                (1, 5, 45),
+                (2, 3, 50),
+                (3, 4, 45),
+                (4, 5, 50),
+                (1, 6, 30),
+                (3, 9, 35),
+                (4, 8, 28),
+                (5, 7, 26),
+                (9, 10, 5),
+            ]
+        )
+        ans = {1: 6, 2: 3, 3: 2, 4: 8, 5: 7, 6: 1, 7: 5, 8: 4, 9: 10, 10: 9}
+        answer = matching_dict_to_set(ans)
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+    def test_nasty_blossom_augmenting(self):
+        """Create nested blossom, relabel as T in more than one way"""
+        # expand outer blossom such that inner blossom ends up on an
+        # augmenting path:
+        G = nx.Graph()
+        G.add_weighted_edges_from(
+            [
+                (1, 2, 45),
+                (1, 7, 45),
+                (2, 3, 50),
+                (3, 4, 45),
+                (4, 5, 95),
+                (4, 6, 94),
+                (5, 6, 94),
+                (6, 7, 50),
+                (1, 8, 30),
+                (3, 11, 35),
+                (5, 9, 36),
+                (7, 10, 26),
+                (11, 12, 5),
+            ]
+        )
+        ans = {
+            1: 8,
+            2: 3,
+            3: 2,
+            4: 6,
+            5: 9,
+            6: 4,
+            7: 10,
+            8: 1,
+            9: 5,
+            10: 7,
+            11: 12,
+            12: 11,
+        }
+        answer = matching_dict_to_set(ans)
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+    def test_nasty_blossom_expand_recursively(self):
+        """Create nested S-blossom, relabel as S, expand recursively:"""
+        G = nx.Graph()
+        G.add_weighted_edges_from(
+            [
+                (1, 2, 40),
+                (1, 3, 40),
+                (2, 3, 60),
+                (2, 4, 55),
+                (3, 5, 55),
+                (4, 5, 50),
+                (1, 8, 15),
+                (5, 7, 30),
+                (7, 6, 10),
+                (8, 10, 10),
+                (4, 9, 30),
+            ]
+        )
+        ans = {1: 2, 2: 1, 3: 5, 4: 9, 5: 3, 6: 7, 7: 6, 8: 10, 9: 4, 10: 8}
+        answer = matching_dict_to_set(ans)
+        assert edges_equal(nx.max_weight_matching(G), answer)
+        assert edges_equal(nx.min_weight_matching(G), answer)
+
+    def test_wrong_graph_type(self):
+        error = nx.NetworkXNotImplemented
+        raises(error, nx.max_weight_matching, nx.MultiGraph())
+        raises(error, nx.max_weight_matching, nx.MultiDiGraph())
+        raises(error, nx.max_weight_matching, nx.DiGraph())
+        raises(error, nx.min_weight_matching, nx.DiGraph())
+
+
+class TestIsMatching:
+    """Unit tests for the
+    :func:`~networkx.algorithms.matching.is_matching` function.
+
+    """
+
+    def test_dict(self):
+        G = nx.path_graph(4)
+        assert nx.is_matching(G, {0: 1, 1: 0, 2: 3, 3: 2})
+
+    def test_empty_matching(self):
+        G = nx.path_graph(4)
+        assert nx.is_matching(G, set())
+
+    def test_single_edge(self):
+        G = nx.path_graph(4)
+        assert nx.is_matching(G, {(1, 2)})
+
+    def test_edge_order(self):
+        G = nx.path_graph(4)
+        assert nx.is_matching(G, {(0, 1), (2, 3)})
+        assert nx.is_matching(G, {(1, 0), (2, 3)})
+        assert nx.is_matching(G, {(0, 1), (3, 2)})
+        assert nx.is_matching(G, {(1, 0), (3, 2)})
+
+    def test_valid_matching(self):
+        G = nx.path_graph(4)
+        assert nx.is_matching(G, {(0, 1), (2, 3)})
+
+    def test_invalid_input(self):
+        error = nx.NetworkXError
+        G = nx.path_graph(4)
+        # edge to node not in G
+        raises(error, nx.is_matching, G, {(0, 5), (2, 3)})
+        # edge not a 2-tuple
+        raises(error, nx.is_matching, G, {(0, 1, 2), (2, 3)})
+        raises(error, nx.is_matching, G, {(0,), (2, 3)})
+
+    def test_selfloops(self):
+        error = nx.NetworkXError
+        G = nx.path_graph(4)
+        # selfloop for node not in G
+        raises(error, nx.is_matching, G, {(5, 5), (2, 3)})
+        # selfloop edge not in G
+        assert not nx.is_matching(G, {(0, 0), (1, 2), (2, 3)})
+        # selfloop edge in G
+        G.add_edge(0, 0)
+        assert not nx.is_matching(G, {(0, 0), (1, 2)})
+
+    def test_invalid_matching(self):
+        G = nx.path_graph(4)
+        assert not nx.is_matching(G, {(0, 1), (1, 2), (2, 3)})
+
+    def test_invalid_edge(self):
+        G = nx.path_graph(4)
+        assert not nx.is_matching(G, {(0, 3), (1, 2)})
+        raises(nx.NetworkXError, nx.is_matching, G, {(0, 55)})
+
+        G = nx.DiGraph(G.edges)
+        assert nx.is_matching(G, {(0, 1)})
+        assert not nx.is_matching(G, {(1, 0)})
+
+
+class TestIsMaximalMatching:
+    """Unit tests for the
+    :func:`~networkx.algorithms.matching.is_maximal_matching` function.
+
+    """
+
+    def test_dict(self):
+        G = nx.path_graph(4)
+        assert nx.is_maximal_matching(G, {0: 1, 1: 0, 2: 3, 3: 2})
+
+    def test_invalid_input(self):
+        error = nx.NetworkXError
+        G = nx.path_graph(4)
+        # edge to node not in G
+        raises(error, nx.is_maximal_matching, G, {(0, 5)})
+        raises(error, nx.is_maximal_matching, G, {(5, 0)})
+        # edge not a 2-tuple
+        raises(error, nx.is_maximal_matching, G, {(0, 1, 2), (2, 3)})
+        raises(error, nx.is_maximal_matching, G, {(0,), (2, 3)})
+
+    def test_valid(self):
+        G = nx.path_graph(4)
+        assert nx.is_maximal_matching(G, {(0, 1), (2, 3)})
+
+    def test_not_matching(self):
+        G = nx.path_graph(4)
+        assert not nx.is_maximal_matching(G, {(0, 1), (1, 2), (2, 3)})
+        assert not nx.is_maximal_matching(G, {(0, 3)})
+        G.add_edge(0, 0)
+        assert not nx.is_maximal_matching(G, {(0, 0)})
+
+    def test_not_maximal(self):
+        G = nx.path_graph(4)
+        assert not nx.is_maximal_matching(G, {(0, 1)})
+
+
+class TestIsPerfectMatching:
+    """Unit tests for the
+    :func:`~networkx.algorithms.matching.is_perfect_matching` function.
+
+    """
+
+    def test_dict(self):
+        G = nx.path_graph(4)
+        assert nx.is_perfect_matching(G, {0: 1, 1: 0, 2: 3, 3: 2})
+
+    def test_valid(self):
+        G = nx.path_graph(4)
+        assert nx.is_perfect_matching(G, {(0, 1), (2, 3)})
+
+    def test_valid_not_path(self):
+        G = nx.cycle_graph(4)
+        G.add_edge(0, 4)
+        G.add_edge(1, 4)
+        G.add_edge(5, 2)
+
+        assert nx.is_perfect_matching(G, {(1, 4), (0, 3), (5, 2)})
+
+    def test_invalid_input(self):
+        error = nx.NetworkXError
+        G = nx.path_graph(4)
+        # edge to node not in G
+        raises(error, nx.is_perfect_matching, G, {(0, 5)})
+        raises(error, nx.is_perfect_matching, G, {(5, 0)})
+        # edge not a 2-tuple
+        raises(error, nx.is_perfect_matching, G, {(0, 1, 2), (2, 3)})
+        raises(error, nx.is_perfect_matching, G, {(0,), (2, 3)})
+
+    def test_selfloops(self):
+        error = nx.NetworkXError
+        G = nx.path_graph(4)
+        # selfloop for node not in G
+        raises(error, nx.is_perfect_matching, G, {(5, 5), (2, 3)})
+        # selfloop edge not in G
+        assert not nx.is_perfect_matching(G, {(0, 0), (1, 2), (2, 3)})
+        # selfloop edge in G
+        G.add_edge(0, 0)
+        assert not nx.is_perfect_matching(G, {(0, 0), (1, 2)})
+
+    def test_not_matching(self):
+        G = nx.path_graph(4)
+        assert not nx.is_perfect_matching(G, {(0, 3)})
+        assert not nx.is_perfect_matching(G, {(0, 1), (1, 2), (2, 3)})
+
+    def test_maximal_but_not_perfect(self):
+        G = nx.cycle_graph(4)
+        G.add_edge(0, 4)
+        G.add_edge(1, 4)
+
+        assert not nx.is_perfect_matching(G, {(1, 4), (0, 3)})
+
+
+class TestMaximalMatching:
+    """Unit tests for the
+    :func:`~networkx.algorithms.matching.maximal_matching`.
+
+    """
+
+    def test_valid_matching(self):
+        edges = [(1, 2), (1, 5), (2, 3), (2, 5), (3, 4), (3, 6), (5, 6)]
+        G = nx.Graph(edges)
+        matching = nx.maximal_matching(G)
+        assert nx.is_maximal_matching(G, matching)
+
+    def test_single_edge_matching(self):
+        # In the star graph, any maximal matching has just one edge.
+        G = nx.star_graph(5)
+        matching = nx.maximal_matching(G)
+        assert 1 == len(matching)
+        assert nx.is_maximal_matching(G, matching)
+
+    def test_self_loops(self):
+        # Create the path graph with two self-loops.
+        G = nx.path_graph(3)
+        G.add_edges_from([(0, 0), (1, 1)])
+        matching = nx.maximal_matching(G)
+        assert len(matching) == 1
+        # The matching should never include self-loops.
+        assert not any(u == v for u, v in matching)
+        assert nx.is_maximal_matching(G, matching)
+
+    def test_ordering(self):
+        """Tests that a maximal matching is computed correctly
+        regardless of the order in which nodes are added to the graph.
+
+        """
+        for nodes in permutations(range(3)):
+            G = nx.Graph()
+            G.add_nodes_from(nodes)
+            G.add_edges_from([(0, 1), (0, 2)])
+            matching = nx.maximal_matching(G)
+            assert len(matching) == 1
+            assert nx.is_maximal_matching(G, matching)
+
+    def test_wrong_graph_type(self):
+        error = nx.NetworkXNotImplemented
+        raises(error, nx.maximal_matching, nx.MultiGraph())
+        raises(error, nx.maximal_matching, nx.MultiDiGraph())
+        raises(error, nx.maximal_matching, nx.DiGraph())

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_max_weight_clique.py

@@ -0,0 +1,181 @@
+"""Maximum weight clique test suite.
+
+"""
+
+import pytest
+
+import networkx as nx
+
+
+class TestMaximumWeightClique:
+    def test_basic_cases(self):
+        def check_basic_case(graph_func, expected_weight, weight_accessor):
+            graph = graph_func()
+            clique, weight = nx.algorithms.max_weight_clique(graph, weight_accessor)
+            assert verify_clique(
+                graph, clique, weight, expected_weight, weight_accessor
+            )
+
+        for graph_func, (expected_weight, expected_size) in TEST_CASES.items():
+            check_basic_case(graph_func, expected_weight, "weight")
+            check_basic_case(graph_func, expected_size, None)
+
+    def test_key_error(self):
+        graph = two_node_graph()
+        with pytest.raises(KeyError):
+            nx.algorithms.max_weight_clique(graph, "nonexistent-key")
+
+    def test_error_on_non_integer_weight(self):
+        graph = two_node_graph()
+        graph.nodes[2]["weight"] = 1.5
+        with pytest.raises(ValueError):
+            nx.algorithms.max_weight_clique(graph)
+
+    def test_unaffected_by_self_loops(self):
+        graph = two_node_graph()
+        graph.add_edge(1, 1)
+        graph.add_edge(2, 2)
+        clique, weight = nx.algorithms.max_weight_clique(graph, "weight")
+        assert verify_clique(graph, clique, weight, 30, "weight")
+        graph = three_node_independent_set()
+        graph.add_edge(1, 1)
+        clique, weight = nx.algorithms.max_weight_clique(graph, "weight")
+        assert verify_clique(graph, clique, weight, 20, "weight")
+
+    def test_30_node_prob(self):
+        G = nx.Graph()
+        G.add_nodes_from(range(1, 31))
+        for i in range(1, 31):
+            G.nodes[i]["weight"] = i + 1
+        # fmt: off
+        G.add_edges_from(
+            [
+                (1, 12), (1, 13), (1, 15), (1, 16), (1, 18), (1, 19), (1, 20),
+                (1, 23), (1, 26), (1, 28), (1, 29), (1, 30), (2, 3), (2, 4),
+                (2, 5), (2, 8), (2, 9), (2, 10), (2, 14), (2, 17), (2, 18),
+                (2, 21), (2, 22), (2, 23), (2, 27), (3, 9), (3, 15), (3, 21),
+                (3, 22), (3, 23), (3, 24), (3, 27), (3, 28), (3, 29), (4, 5),
+                (4, 6), (4, 8), (4, 21), (4, 22), (4, 23), (4, 26), (4, 28),
+                (4, 30), (5, 6), (5, 8), (5, 9), (5, 13), (5, 14), (5, 15),
+                (5, 16), (5, 20), (5, 21), (5, 22), (5, 25), (5, 28), (5, 29),
+                (6, 7), (6, 8), (6, 13), (6, 17), (6, 18), (6, 19), (6, 24),
+                (6, 26), (6, 27), (6, 28), (6, 29), (7, 12), (7, 14), (7, 15),
+                (7, 16), (7, 17), (7, 20), (7, 25), (7, 27), (7, 29), (7, 30),
+                (8, 10), (8, 15), (8, 16), (8, 18), (8, 20), (8, 22), (8, 24),
+                (8, 26), (8, 27), (8, 28), (8, 30), (9, 11), (9, 12), (9, 13),
+                (9, 14), (9, 15), (9, 16), (9, 19), (9, 20), (9, 21), (9, 24),
+                (9, 30), (10, 12), (10, 15), (10, 18), (10, 19), (10, 20),
+                (10, 22), (10, 23), (10, 24), (10, 26), (10, 27), (10, 29),
+                (10, 30), (11, 13), (11, 15), (11, 16), (11, 17), (11, 18),
+                (11, 19), (11, 20), (11, 22), (11, 29), (11, 30), (12, 14),
+                (12, 17), (12, 18), (12, 19), (12, 20), (12, 21), (12, 23),
+                (12, 25), (12, 26), (12, 30), (13, 20), (13, 22), (13, 23),
+                (13, 24), (13, 30), (14, 16), (14, 20), (14, 21), (14, 22),
+                (14, 23), (14, 25), (14, 26), (14, 27), (14, 29), (14, 30),
+                (15, 17), (15, 18), (15, 20), (15, 21), (15, 26), (15, 27),
+                (15, 28), (16, 17), (16, 18), (16, 19), (16, 20), (16, 21),
+                (16, 29), (16, 30), (17, 18), (17, 21), (17, 22), (17, 25),
+                (17, 27), (17, 28), (17, 30), (18, 19), (18, 20), (18, 21),
+                (18, 22), (18, 23), (18, 24), (19, 20), (19, 22), (19, 23),
+                (19, 24), (19, 25), (19, 27), (19, 30), (20, 21), (20, 23),
+                (20, 24), (20, 26), (20, 28), (20, 29), (21, 23), (21, 26),
+                (21, 27), (21, 29), (22, 24), (22, 25), (22, 26), (22, 29),
+                (23, 25), (23, 30), (24, 25), (24, 26), (25, 27), (25, 29),
+                (26, 27), (26, 28), (26, 30), (28, 29), (29, 30),
+            ]
+        )
+        # fmt: on
+        clique, weight = nx.algorithms.max_weight_clique(G)
+        assert verify_clique(G, clique, weight, 111, "weight")
+
+
+#  ############################  Utility functions ############################
+def verify_clique(
+    graph, clique, reported_clique_weight, expected_clique_weight, weight_accessor
+):
+    for node1 in clique:
+        for node2 in clique:
+            if node1 == node2:
+                continue
+            if not graph.has_edge(node1, node2):
+                return False
+
+    if weight_accessor is None:
+        clique_weight = len(clique)
+    else:
+        clique_weight = sum(graph.nodes[v]["weight"] for v in clique)
+
+    if clique_weight != expected_clique_weight:
+        return False
+    if clique_weight != reported_clique_weight:
+        return False
+
+    return True
+
+
+#  ############################  Graph Generation ############################
+
+
+def empty_graph():
+    return nx.Graph()
+
+
+def one_node_graph():
+    graph = nx.Graph()
+    graph.add_nodes_from([1])
+    graph.nodes[1]["weight"] = 10
+    return graph
+
+
+def two_node_graph():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2])
+    graph.add_edges_from([(1, 2)])
+    graph.nodes[1]["weight"] = 10
+    graph.nodes[2]["weight"] = 20
+    return graph
+
+
+def three_node_clique():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3])
+    graph.add_edges_from([(1, 2), (1, 3), (2, 3)])
+    graph.nodes[1]["weight"] = 10
+    graph.nodes[2]["weight"] = 20
+    graph.nodes[3]["weight"] = 5
+    return graph
+
+
+def three_node_independent_set():
+    graph = nx.Graph()
+    graph.add_nodes_from([1, 2, 3])
+    graph.nodes[1]["weight"] = 10
+    graph.nodes[2]["weight"] = 20
+    graph.nodes[3]["weight"] = 5
+    return graph
+
+
+def disconnected():
+    graph = nx.Graph()
+    graph.add_edges_from([(1, 2), (2, 3), (4, 5), (5, 6)])
+    graph.nodes[1]["weight"] = 10
+    graph.nodes[2]["weight"] = 20
+    graph.nodes[3]["weight"] = 5
+    graph.nodes[4]["weight"] = 100
+    graph.nodes[5]["weight"] = 200
+    graph.nodes[6]["weight"] = 50
+    return graph
+
+
+# --------------------------------------------------------------------------
+# Basic tests for all strategies
+# For each basic graph function, specify expected weight of max weight clique
+# and expected size of maximum clique
+TEST_CASES = {
+    empty_graph: (0, 0),
+    one_node_graph: (10, 1),
+    two_node_graph: (30, 2),
+    three_node_clique: (35, 3),
+    three_node_independent_set: (20, 1),
+    disconnected: (300, 2),
+}

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_node_classification.py

@@ -0,0 +1,140 @@
+import pytest
+
+pytest.importorskip("numpy")
+pytest.importorskip("scipy")
+
+import networkx as nx
+from networkx.algorithms import node_classification
+
+
+class TestHarmonicFunction:
+    def test_path_graph(self):
+        G = nx.path_graph(4)
+        label_name = "label"
+        G.nodes[0][label_name] = "A"
+        G.nodes[3][label_name] = "B"
+        predicted = node_classification.harmonic_function(G, label_name=label_name)
+        assert predicted[0] == "A"
+        assert predicted[1] == "A"
+        assert predicted[2] == "B"
+        assert predicted[3] == "B"
+
+    def test_no_labels(self):
+        with pytest.raises(nx.NetworkXError):
+            G = nx.path_graph(4)
+            node_classification.harmonic_function(G)
+
+    def test_no_nodes(self):
+        with pytest.raises(nx.NetworkXError):
+            G = nx.Graph()
+            node_classification.harmonic_function(G)
+
+    def test_no_edges(self):
+        with pytest.raises(nx.NetworkXError):
+            G = nx.Graph()
+            G.add_node(1)
+            G.add_node(2)
+            node_classification.harmonic_function(G)
+
+    def test_digraph(self):
+        with pytest.raises(nx.NetworkXNotImplemented):
+            G = nx.DiGraph()
+            G.add_edge(0, 1)
+            G.add_edge(1, 2)
+            G.add_edge(2, 3)
+            label_name = "label"
+            G.nodes[0][label_name] = "A"
+            G.nodes[3][label_name] = "B"
+            node_classification.harmonic_function(G)
+
+    def test_one_labeled_node(self):
+        G = nx.path_graph(4)
+        label_name = "label"
+        G.nodes[0][label_name] = "A"
+        predicted = node_classification.harmonic_function(G, label_name=label_name)
+        assert predicted[0] == "A"
+        assert predicted[1] == "A"
+        assert predicted[2] == "A"
+        assert predicted[3] == "A"
+
+    def test_nodes_all_labeled(self):
+        G = nx.karate_club_graph()
+        label_name = "club"
+        predicted = node_classification.harmonic_function(G, label_name=label_name)
+        for i in range(len(G)):
+            assert predicted[i] == G.nodes[i][label_name]
+
+    def test_labeled_nodes_are_not_changed(self):
+        G = nx.karate_club_graph()
+        label_name = "club"
+        label_removed = {0, 1, 2, 3, 4, 5, 6, 7}
+        for i in label_removed:
+            del G.nodes[i][label_name]
+        predicted = node_classification.harmonic_function(G, label_name=label_name)
+        label_not_removed = set(range(len(G))) - label_removed
+        for i in label_not_removed:
+            assert predicted[i] == G.nodes[i][label_name]
+
+
+class TestLocalAndGlobalConsistency:
+    def test_path_graph(self):
+        G = nx.path_graph(4)
+        label_name = "label"
+        G.nodes[0][label_name] = "A"
+        G.nodes[3][label_name] = "B"
+        predicted = node_classification.local_and_global_consistency(
+            G, label_name=label_name
+        )
+        assert predicted[0] == "A"
+        assert predicted[1] == "A"
+        assert predicted[2] == "B"
+        assert predicted[3] == "B"
+
+    def test_no_labels(self):
+        with pytest.raises(nx.NetworkXError):
+            G = nx.path_graph(4)
+            node_classification.local_and_global_consistency(G)
+
+    def test_no_nodes(self):
+        with pytest.raises(nx.NetworkXError):
+            G = nx.Graph()
+            node_classification.local_and_global_consistency(G)
+
+    def test_no_edges(self):
+        with pytest.raises(nx.NetworkXError):
+            G = nx.Graph()
+            G.add_node(1)
+            G.add_node(2)
+            node_classification.local_and_global_consistency(G)
+
+    def test_digraph(self):
+        with pytest.raises(nx.NetworkXNotImplemented):
+            G = nx.DiGraph()
+            G.add_edge(0, 1)
+            G.add_edge(1, 2)
+            G.add_edge(2, 3)
+            label_name = "label"
+            G.nodes[0][label_name] = "A"
+            G.nodes[3][label_name] = "B"
+            node_classification.harmonic_function(G)
+
+    def test_one_labeled_node(self):
+        G = nx.path_graph(4)
+        label_name = "label"
+        G.nodes[0][label_name] = "A"
+        predicted = node_classification.local_and_global_consistency(
+            G, label_name=label_name
+        )
+        assert predicted[0] == "A"
+        assert predicted[1] == "A"
+        assert predicted[2] == "A"
+        assert predicted[3] == "A"
+
+    def test_nodes_all_labeled(self):
+        G = nx.karate_club_graph()
+        label_name = "club"
+        predicted = node_classification.local_and_global_consistency(
+            G, alpha=0, label_name=label_name
+        )
+        for i in range(len(G)):
+            assert predicted[i] == G.nodes[i][label_name]

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_non_randomness.py

@@ -0,0 +1,37 @@
+import pytest
+
+import networkx as nx
+
+np = pytest.importorskip("numpy")
+
+
+@pytest.mark.parametrize(
+    "k, weight, expected",
+    [
+        (None, None, 7.21),  # infers 3 communities
+        (2, None, 11.7),
+        (None, "weight", 25.45),
+        (2, "weight", 38.8),
+    ],
+)
+def test_non_randomness(k, weight, expected):
+    G = nx.karate_club_graph()
+    np.testing.assert_almost_equal(
+        nx.non_randomness(G, k, weight)[0], expected, decimal=2
+    )
+
+
+def test_non_connected():
+    G = nx.Graph()
+    G.add_edge(1, 2)
+    G.add_node(3)
+    with pytest.raises(nx.NetworkXException):
+        nx.non_randomness(G)
+
+
+def test_self_loops():
+    G = nx.Graph()
+    G.add_edge(1, 2)
+    G.add_edge(1, 1)
+    with pytest.raises(nx.NetworkXError):
+        nx.non_randomness(G)

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_polynomials.py

@@ -0,0 +1,57 @@
+"""Unit tests for the :mod:`networkx.algorithms.polynomials` module."""
+
+import pytest
+
+import networkx as nx
+
+sympy = pytest.importorskip("sympy")
+
+
+# Mapping of input graphs to a string representation of their tutte polynomials
+_test_tutte_graphs = {
+    nx.complete_graph(1): "1",
+    nx.complete_graph(4): "x**3 + 3*x**2 + 4*x*y + 2*x + y**3 + 3*y**2 + 2*y",
+    nx.cycle_graph(5): "x**4 + x**3 + x**2 + x + y",
+    nx.diamond_graph(): "x**3 + 2*x**2 + 2*x*y + x + y**2 + y",
+}
+
+_test_chromatic_graphs = {
+    nx.complete_graph(1): "x",
+    nx.complete_graph(4): "x**4 - 6*x**3 + 11*x**2 - 6*x",
+    nx.cycle_graph(5): "x**5 - 5*x**4 + 10*x**3 - 10*x**2 + 4*x",
+    nx.diamond_graph(): "x**4 - 5*x**3 + 8*x**2 - 4*x",
+    nx.path_graph(5): "x**5 - 4*x**4 + 6*x**3 - 4*x**2 + x",
+}
+
+
+@pytest.mark.parametrize(("G", "expected"), _test_tutte_graphs.items())
+def test_tutte_polynomial(G, expected):
+    assert nx.tutte_polynomial(G).equals(expected)
+
+
+@pytest.mark.parametrize("G", _test_tutte_graphs.keys())
+def test_tutte_polynomial_disjoint(G):
+    """Tutte polynomial factors into the Tutte polynomials of its components.
+    Verify this property with the disjoint union of two copies of the input graph.
+    """
+    t_g = nx.tutte_polynomial(G)
+    H = nx.disjoint_union(G, G)
+    t_h = nx.tutte_polynomial(H)
+    assert sympy.simplify(t_g * t_g).equals(t_h)
+
+
+@pytest.mark.parametrize(("G", "expected"), _test_chromatic_graphs.items())
+def test_chromatic_polynomial(G, expected):
+    assert nx.chromatic_polynomial(G).equals(expected)
+
+
+@pytest.mark.parametrize("G", _test_chromatic_graphs.keys())
+def test_chromatic_polynomial_disjoint(G):
+    """Chromatic polynomial factors into the Chromatic polynomials of its
+    components. Verify this property with the disjoint union of two copies of
+    the input graph.
+    """
+    x_g = nx.chromatic_polynomial(G)
+    H = nx.disjoint_union(G, G)
+    x_h = nx.chromatic_polynomial(H)
+    assert sympy.simplify(x_g * x_g).equals(x_h)

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_reciprocity.py

@@ -0,0 +1,37 @@
+import pytest
+
+import networkx as nx
+
+
+class TestReciprocity:
+    # test overall reciprocity by passing whole graph
+    def test_reciprocity_digraph(self):
+        DG = nx.DiGraph([(1, 2), (2, 1)])
+        reciprocity = nx.reciprocity(DG)
+        assert reciprocity == 1.0
+
+    # test empty graph's overall reciprocity which will throw an error
+    def test_overall_reciprocity_empty_graph(self):
+        with pytest.raises(nx.NetworkXError):
+            DG = nx.DiGraph()
+            nx.overall_reciprocity(DG)
+
+    # test for reciprocity for a list of nodes
+    def test_reciprocity_graph_nodes(self):
+        DG = nx.DiGraph([(1, 2), (2, 3), (3, 2)])
+        reciprocity = nx.reciprocity(DG, [1, 2])
+        expected_reciprocity = {1: 0.0, 2: 0.6666666666666666}
+        assert reciprocity == expected_reciprocity
+
+    # test for reciprocity for a single node
+    def test_reciprocity_graph_node(self):
+        DG = nx.DiGraph([(1, 2), (2, 3), (3, 2)])
+        reciprocity = nx.reciprocity(DG, 2)
+        assert reciprocity == 0.6666666666666666
+
+    # test for reciprocity for an isolated node
+    def test_reciprocity_graph_isolated_nodes(self):
+        with pytest.raises(nx.NetworkXError):
+            DG = nx.DiGraph([(1, 2)])
+            DG.add_node(4)
+            nx.reciprocity(DG, 4)

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_richclub.py

@@ -0,0 +1,149 @@
+import pytest
+
+import networkx as nx
+
+
+def test_richclub():
+    G = nx.Graph([(0, 1), (0, 2), (1, 2), (1, 3), (1, 4), (4, 5)])
+    rc = nx.richclub.rich_club_coefficient(G, normalized=False)
+    assert rc == {0: 12.0 / 30, 1: 8.0 / 12}
+
+    # test single value
+    rc0 = nx.richclub.rich_club_coefficient(G, normalized=False)[0]
+    assert rc0 == 12.0 / 30.0
+
+
+def test_richclub_seed():
+    G = nx.Graph([(0, 1), (0, 2), (1, 2), (1, 3), (1, 4), (4, 5)])
+    rcNorm = nx.richclub.rich_club_coefficient(G, Q=2, seed=1)
+    assert rcNorm == {0: 1.0, 1: 1.0}
+
+
+def test_richclub_normalized():
+    G = nx.Graph([(0, 1), (0, 2), (1, 2), (1, 3), (1, 4), (4, 5)])
+    rcNorm = nx.richclub.rich_club_coefficient(G, Q=2, seed=42)
+    assert rcNorm == {0: 1.0, 1: 1.0}
+
+
+def test_richclub2():
+    T = nx.balanced_tree(2, 10)
+    rc = nx.richclub.rich_club_coefficient(T, normalized=False)
+    assert rc == {
+        0: 4092 / (2047 * 2046.0),
+        1: (2044.0 / (1023 * 1022)),
+        2: (2040.0 / (1022 * 1021)),
+    }
+
+
+def test_richclub3():
+    # tests edgecase
+    G = nx.karate_club_graph()
+    rc = nx.rich_club_coefficient(G, normalized=False)
+    assert rc == {
+        0: 156.0 / 1122,
+        1: 154.0 / 1056,
+        2: 110.0 / 462,
+        3: 78.0 / 240,
+        4: 44.0 / 90,
+        5: 22.0 / 42,
+        6: 10.0 / 20,
+        7: 10.0 / 20,
+        8: 10.0 / 20,
+        9: 6.0 / 12,
+        10: 2.0 / 6,
+        11: 2.0 / 6,
+        12: 0.0,
+        13: 0.0,
+        14: 0.0,
+        15: 0.0,
+    }
+
+
+def test_richclub4():
+    G = nx.Graph()
+    G.add_edges_from(
+        [(0, 1), (0, 2), (0, 3), (0, 4), (4, 5), (5, 9), (6, 9), (7, 9), (8, 9)]
+    )
+    rc = nx.rich_club_coefficient(G, normalized=False)
+    assert rc == {0: 18 / 90.0, 1: 6 / 12.0, 2: 0.0, 3: 0.0}
+
+
+def test_richclub_exception():
+    with pytest.raises(nx.NetworkXNotImplemented):
+        G = nx.DiGraph()
+        nx.rich_club_coefficient(G)
+
+
+def test_rich_club_exception2():
+    with pytest.raises(nx.NetworkXNotImplemented):
+        G = nx.MultiGraph()
+        nx.rich_club_coefficient(G)
+
+
+def test_rich_club_selfloop():
+    G = nx.Graph()  # or DiGraph, MultiGraph, MultiDiGraph, etc
+    G.add_edge(1, 1)  # self loop
+    G.add_edge(1, 2)
+    with pytest.raises(
+        Exception,
+        match="rich_club_coefficient is not implemented for " "graphs with self loops.",
+    ):
+        nx.rich_club_coefficient(G)
+
+
+def test_rich_club_leq_3_nodes_unnormalized():
+    # edgeless graphs upto 3 nodes
+    G = nx.Graph()
+    rc = nx.rich_club_coefficient(G, normalized=False)
+    assert rc == {}
+
+    for i in range(3):
+        G.add_node(i)
+        rc = nx.rich_club_coefficient(G, normalized=False)
+        assert rc == {}
+
+    # 2 nodes, single edge
+    G = nx.Graph()
+    G.add_edge(0, 1)
+    rc = nx.rich_club_coefficient(G, normalized=False)
+    assert rc == {0: 1}
+
+    # 3 nodes, single edge
+    G = nx.Graph()
+    G.add_nodes_from([0, 1, 2])
+    G.add_edge(0, 1)
+    rc = nx.rich_club_coefficient(G, normalized=False)
+    assert rc == {0: 1}
+
+    # 3 nodes, 2 edges
+    G.add_edge(1, 2)
+    rc = nx.rich_club_coefficient(G, normalized=False)
+    assert rc == {0: 2 / 3}
+
+    # 3 nodes, 3 edges
+    G.add_edge(0, 2)
+    rc = nx.rich_club_coefficient(G, normalized=False)
+    assert rc == {0: 1, 1: 1}
+
+
+def test_rich_club_leq_3_nodes_normalized():
+    G = nx.Graph()
+    with pytest.raises(
+        nx.exception.NetworkXError,
+        match="Graph has fewer than four nodes",
+    ):
+        rc = nx.rich_club_coefficient(G, normalized=True)
+
+    for i in range(3):
+        G.add_node(i)
+        with pytest.raises(
+            nx.exception.NetworkXError,
+            match="Graph has fewer than four nodes",
+        ):
+            rc = nx.rich_club_coefficient(G, normalized=True)
+
+
+# def test_richclub2_normalized():
+#    T = nx.balanced_tree(2,10)
+#    rcNorm = nx.richclub.rich_club_coefficient(T,Q=2)
+#    assert_true(rcNorm[0] ==1.0 and rcNorm[1] < 0.9 and rcNorm[2] < 0.9)

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_similarity.py

@@ -0,0 +1,946 @@
+import pytest
+
+import networkx as nx
+from networkx.algorithms.similarity import (
+    graph_edit_distance,
+    optimal_edit_paths,
+    optimize_graph_edit_distance,
+)
+from networkx.generators.classic import (
+    circular_ladder_graph,
+    cycle_graph,
+    path_graph,
+    wheel_graph,
+)
+
+
+def nmatch(n1, n2):
+    return n1 == n2
+
+
+def ematch(e1, e2):
+    return e1 == e2
+
+
+def getCanonical():
+    G = nx.Graph()
+    G.add_node("A", label="A")
+    G.add_node("B", label="B")
+    G.add_node("C", label="C")
+    G.add_node("D", label="D")
+    G.add_edge("A", "B", label="a-b")
+    G.add_edge("B", "C", label="b-c")
+    G.add_edge("B", "D", label="b-d")
+    return G
+
+
+class TestSimilarity:
+    @classmethod
+    def setup_class(cls):
+        global np
+        np = pytest.importorskip("numpy")
+        pytest.importorskip("scipy")
+
+    def test_graph_edit_distance_roots_and_timeout(self):
+        G0 = nx.star_graph(5)
+        G1 = G0.copy()
+        pytest.raises(ValueError, graph_edit_distance, G0, G1, roots=[2])
+        pytest.raises(ValueError, graph_edit_distance, G0, G1, roots=[2, 3, 4])
+        pytest.raises(nx.NodeNotFound, graph_edit_distance, G0, G1, roots=(9, 3))
+        pytest.raises(nx.NodeNotFound, graph_edit_distance, G0, G1, roots=(3, 9))
+        pytest.raises(nx.NodeNotFound, graph_edit_distance, G0, G1, roots=(9, 9))
+        assert graph_edit_distance(G0, G1, roots=(1, 2)) == 0
+        assert graph_edit_distance(G0, G1, roots=(0, 1)) == 8
+        assert graph_edit_distance(G0, G1, roots=(1, 2), timeout=5) == 0
+        assert graph_edit_distance(G0, G1, roots=(0, 1), timeout=5) == 8
+        assert graph_edit_distance(G0, G1, roots=(0, 1), timeout=0.0001) is None
+        # test raise on 0 timeout
+        pytest.raises(nx.NetworkXError, graph_edit_distance, G0, G1, timeout=0)
+
+    def test_graph_edit_distance(self):
+        G0 = nx.Graph()
+        G1 = path_graph(6)
+        G2 = cycle_graph(6)
+        G3 = wheel_graph(7)
+
+        assert graph_edit_distance(G0, G0) == 0
+        assert graph_edit_distance(G0, G1) == 11
+        assert graph_edit_distance(G1, G0) == 11
+        assert graph_edit_distance(G0, G2) == 12
+        assert graph_edit_distance(G2, G0) == 12
+        assert graph_edit_distance(G0, G3) == 19
+        assert graph_edit_distance(G3, G0) == 19
+
+        assert graph_edit_distance(G1, G1) == 0
+        assert graph_edit_distance(G1, G2) == 1
+        assert graph_edit_distance(G2, G1) == 1
+        assert graph_edit_distance(G1, G3) == 8
+        assert graph_edit_distance(G3, G1) == 8
+
+        assert graph_edit_distance(G2, G2) == 0
+        assert graph_edit_distance(G2, G3) == 7
+        assert graph_edit_distance(G3, G2) == 7
+
+        assert graph_edit_distance(G3, G3) == 0
+
+    def test_graph_edit_distance_node_match(self):
+        G1 = cycle_graph(5)
+        G2 = cycle_graph(5)
+        for n, attr in G1.nodes.items():
+            attr["color"] = "red" if n % 2 == 0 else "blue"
+        for n, attr in G2.nodes.items():
+            attr["color"] = "red" if n % 2 == 1 else "blue"
+        assert graph_edit_distance(G1, G2) == 0
+        assert (
+            graph_edit_distance(
+                G1, G2, node_match=lambda n1, n2: n1["color"] == n2["color"]
+            )
+            == 1
+        )
+
+    def test_graph_edit_distance_edge_match(self):
+        G1 = path_graph(6)
+        G2 = path_graph(6)
+        for e, attr in G1.edges.items():
+            attr["color"] = "red" if min(e) % 2 == 0 else "blue"
+        for e, attr in G2.edges.items():
+            attr["color"] = "red" if min(e) // 3 == 0 else "blue"
+        assert graph_edit_distance(G1, G2) == 0
+        assert (
+            graph_edit_distance(
+                G1, G2, edge_match=lambda e1, e2: e1["color"] == e2["color"]
+            )
+            == 2
+        )
+
+    def test_graph_edit_distance_node_cost(self):
+        G1 = path_graph(6)
+        G2 = path_graph(6)
+        for n, attr in G1.nodes.items():
+            attr["color"] = "red" if n % 2 == 0 else "blue"
+        for n, attr in G2.nodes.items():
+            attr["color"] = "red" if n % 2 == 1 else "blue"
+
+        def node_subst_cost(uattr, vattr):
+            if uattr["color"] == vattr["color"]:
+                return 1
+            else:
+                return 10
+
+        def node_del_cost(attr):
+            if attr["color"] == "blue":
+                return 20
+            else:
+                return 50
+
+        def node_ins_cost(attr):
+            if attr["color"] == "blue":
+                return 40
+            else:
+                return 100
+
+        assert (
+            graph_edit_distance(
+                G1,
+                G2,
+                node_subst_cost=node_subst_cost,
+                node_del_cost=node_del_cost,
+                node_ins_cost=node_ins_cost,
+            )
+            == 6
+        )
+
+    def test_graph_edit_distance_edge_cost(self):
+        G1 = path_graph(6)
+        G2 = path_graph(6)
+        for e, attr in G1.edges.items():
+            attr["color"] = "red" if min(e) % 2 == 0 else "blue"
+        for e, attr in G2.edges.items():
+            attr["color"] = "red" if min(e) // 3 == 0 else "blue"
+
+        def edge_subst_cost(gattr, hattr):
+            if gattr["color"] == hattr["color"]:
+                return 0.01
+            else:
+                return 0.1
+
+        def edge_del_cost(attr):
+            if attr["color"] == "blue":
+                return 0.2
+            else:
+                return 0.5
+
+        def edge_ins_cost(attr):
+            if attr["color"] == "blue":
+                return 0.4
+            else:
+                return 1.0
+
+        assert (
+            graph_edit_distance(
+                G1,
+                G2,
+                edge_subst_cost=edge_subst_cost,
+                edge_del_cost=edge_del_cost,
+                edge_ins_cost=edge_ins_cost,
+            )
+            == 0.23
+        )
+
+    def test_graph_edit_distance_upper_bound(self):
+        G1 = circular_ladder_graph(2)
+        G2 = circular_ladder_graph(6)
+        assert graph_edit_distance(G1, G2, upper_bound=5) is None
+        assert graph_edit_distance(G1, G2, upper_bound=24) == 22
+        assert graph_edit_distance(G1, G2) == 22
+
+    def test_optimal_edit_paths(self):
+        G1 = path_graph(3)
+        G2 = cycle_graph(3)
+        paths, cost = optimal_edit_paths(G1, G2)
+        assert cost == 1
+        assert len(paths) == 6
+
+        def canonical(vertex_path, edge_path):
+            return (
+                tuple(sorted(vertex_path)),
+                tuple(sorted(edge_path, key=lambda x: (None in x, x))),
+            )
+
+        expected_paths = [
+            (
+                [(0, 0), (1, 1), (2, 2)],
+                [((0, 1), (0, 1)), ((1, 2), (1, 2)), (None, (0, 2))],
+            ),
+            (
+                [(0, 0), (1, 2), (2, 1)],
+                [((0, 1), (0, 2)), ((1, 2), (1, 2)), (None, (0, 1))],
+            ),
+            (
+                [(0, 1), (1, 0), (2, 2)],
+                [((0, 1), (0, 1)), ((1, 2), (0, 2)), (None, (1, 2))],
+            ),
+            (
+                [(0, 1), (1, 2), (2, 0)],
+                [((0, 1), (1, 2)), ((1, 2), (0, 2)), (None, (0, 1))],
+            ),
+            (
+                [(0, 2), (1, 0), (2, 1)],
+                [((0, 1), (0, 2)), ((1, 2), (0, 1)), (None, (1, 2))],
+            ),
+            (
+                [(0, 2), (1, 1), (2, 0)],
+                [((0, 1), (1, 2)), ((1, 2), (0, 1)), (None, (0, 2))],
+            ),
+        ]
+        assert {canonical(*p) for p in paths} == {canonical(*p) for p in expected_paths}
+
+    def test_optimize_graph_edit_distance(self):
+        G1 = circular_ladder_graph(2)
+        G2 = circular_ladder_graph(6)
+        bestcost = 1000
+        for cost in optimize_graph_edit_distance(G1, G2):
+            assert cost < bestcost
+            bestcost = cost
+        assert bestcost == 22
+
+    # def test_graph_edit_distance_bigger(self):
+    #     G1 = circular_ladder_graph(12)
+    #     G2 = circular_ladder_graph(16)
+    #     assert_equal(graph_edit_distance(G1, G2), 22)
+
+    def test_selfloops(self):
+        G0 = nx.Graph()
+        G1 = nx.Graph()
+        G1.add_edges_from((("A", "A"), ("A", "B")))
+        G2 = nx.Graph()
+        G2.add_edges_from((("A", "B"), ("B", "B")))
+        G3 = nx.Graph()
+        G3.add_edges_from((("A", "A"), ("A", "B"), ("B", "B")))
+
+        assert graph_edit_distance(G0, G0) == 0
+        assert graph_edit_distance(G0, G1) == 4
+        assert graph_edit_distance(G1, G0) == 4
+        assert graph_edit_distance(G0, G2) == 4
+        assert graph_edit_distance(G2, G0) == 4
+        assert graph_edit_distance(G0, G3) == 5
+        assert graph_edit_distance(G3, G0) == 5
+
+        assert graph_edit_distance(G1, G1) == 0
+        assert graph_edit_distance(G1, G2) == 0
+        assert graph_edit_distance(G2, G1) == 0
+        assert graph_edit_distance(G1, G3) == 1
+        assert graph_edit_distance(G3, G1) == 1
+
+        assert graph_edit_distance(G2, G2) == 0
+        assert graph_edit_distance(G2, G3) == 1
+        assert graph_edit_distance(G3, G2) == 1
+
+        assert graph_edit_distance(G3, G3) == 0
+
+    def test_digraph(self):
+        G0 = nx.DiGraph()
+        G1 = nx.DiGraph()
+        G1.add_edges_from((("A", "B"), ("B", "C"), ("C", "D"), ("D", "A")))
+        G2 = nx.DiGraph()
+        G2.add_edges_from((("A", "B"), ("B", "C"), ("C", "D"), ("A", "D")))
+        G3 = nx.DiGraph()
+        G3.add_edges_from((("A", "B"), ("A", "C"), ("B", "D"), ("C", "D")))
+
+        assert graph_edit_distance(G0, G0) == 0
+        assert graph_edit_distance(G0, G1) == 8
+        assert graph_edit_distance(G1, G0) == 8
+        assert graph_edit_distance(G0, G2) == 8
+        assert graph_edit_distance(G2, G0) == 8
+        assert graph_edit_distance(G0, G3) == 8
+        assert graph_edit_distance(G3, G0) == 8
+
+        assert graph_edit_distance(G1, G1) == 0
+        assert graph_edit_distance(G1, G2) == 2
+        assert graph_edit_distance(G2, G1) == 2
+        assert graph_edit_distance(G1, G3) == 4
+        assert graph_edit_distance(G3, G1) == 4
+
+        assert graph_edit_distance(G2, G2) == 0
+        assert graph_edit_distance(G2, G3) == 2
+        assert graph_edit_distance(G3, G2) == 2
+
+        assert graph_edit_distance(G3, G3) == 0
+
+    def test_multigraph(self):
+        G0 = nx.MultiGraph()
+        G1 = nx.MultiGraph()
+        G1.add_edges_from((("A", "B"), ("B", "C"), ("A", "C")))
+        G2 = nx.MultiGraph()
+        G2.add_edges_from((("A", "B"), ("B", "C"), ("B", "C"), ("A", "C")))
+        G3 = nx.MultiGraph()
+        G3.add_edges_from((("A", "B"), ("B", "C"), ("A", "C"), ("A", "C"), ("A", "C")))
+
+        assert graph_edit_distance(G0, G0) == 0
+        assert graph_edit_distance(G0, G1) == 6
+        assert graph_edit_distance(G1, G0) == 6
+        assert graph_edit_distance(G0, G2) == 7
+        assert graph_edit_distance(G2, G0) == 7
+        assert graph_edit_distance(G0, G3) == 8
+        assert graph_edit_distance(G3, G0) == 8
+
+        assert graph_edit_distance(G1, G1) == 0
+        assert graph_edit_distance(G1, G2) == 1
+        assert graph_edit_distance(G2, G1) == 1
+        assert graph_edit_distance(G1, G3) == 2
+        assert graph_edit_distance(G3, G1) == 2
+
+        assert graph_edit_distance(G2, G2) == 0
+        assert graph_edit_distance(G2, G3) == 1
+        assert graph_edit_distance(G3, G2) == 1
+
+        assert graph_edit_distance(G3, G3) == 0
+
+    def test_multidigraph(self):
+        G1 = nx.MultiDiGraph()
+        G1.add_edges_from(
+            (
+                ("hardware", "kernel"),
+                ("kernel", "hardware"),
+                ("kernel", "userspace"),
+                ("userspace", "kernel"),
+            )
+        )
+        G2 = nx.MultiDiGraph()
+        G2.add_edges_from(
+            (
+                ("winter", "spring"),
+                ("spring", "summer"),
+                ("summer", "autumn"),
+                ("autumn", "winter"),
+            )
+        )
+
+        assert graph_edit_distance(G1, G2) == 5
+        assert graph_edit_distance(G2, G1) == 5
+
+    # by https://github.com/jfbeaumont
+    def testCopy(self):
+        G = nx.Graph()
+        G.add_node("A", label="A")
+        G.add_node("B", label="B")
+        G.add_edge("A", "B", label="a-b")
+        assert (
+            graph_edit_distance(G, G.copy(), node_match=nmatch, edge_match=ematch) == 0
+        )
+
+    def testSame(self):
+        G1 = nx.Graph()
+        G1.add_node("A", label="A")
+        G1.add_node("B", label="B")
+        G1.add_edge("A", "B", label="a-b")
+        G2 = nx.Graph()
+        G2.add_node("A", label="A")
+        G2.add_node("B", label="B")
+        G2.add_edge("A", "B", label="a-b")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 0
+
+    def testOneEdgeLabelDiff(self):
+        G1 = nx.Graph()
+        G1.add_node("A", label="A")
+        G1.add_node("B", label="B")
+        G1.add_edge("A", "B", label="a-b")
+        G2 = nx.Graph()
+        G2.add_node("A", label="A")
+        G2.add_node("B", label="B")
+        G2.add_edge("A", "B", label="bad")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 1
+
+    def testOneNodeLabelDiff(self):
+        G1 = nx.Graph()
+        G1.add_node("A", label="A")
+        G1.add_node("B", label="B")
+        G1.add_edge("A", "B", label="a-b")
+        G2 = nx.Graph()
+        G2.add_node("A", label="Z")
+        G2.add_node("B", label="B")
+        G2.add_edge("A", "B", label="a-b")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 1
+
+    def testOneExtraNode(self):
+        G1 = nx.Graph()
+        G1.add_node("A", label="A")
+        G1.add_node("B", label="B")
+        G1.add_edge("A", "B", label="a-b")
+        G2 = nx.Graph()
+        G2.add_node("A", label="A")
+        G2.add_node("B", label="B")
+        G2.add_edge("A", "B", label="a-b")
+        G2.add_node("C", label="C")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 1
+
+    def testOneExtraEdge(self):
+        G1 = nx.Graph()
+        G1.add_node("A", label="A")
+        G1.add_node("B", label="B")
+        G1.add_node("C", label="C")
+        G1.add_node("C", label="C")
+        G1.add_edge("A", "B", label="a-b")
+        G2 = nx.Graph()
+        G2.add_node("A", label="A")
+        G2.add_node("B", label="B")
+        G2.add_node("C", label="C")
+        G2.add_edge("A", "B", label="a-b")
+        G2.add_edge("A", "C", label="a-c")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 1
+
+    def testOneExtraNodeAndEdge(self):
+        G1 = nx.Graph()
+        G1.add_node("A", label="A")
+        G1.add_node("B", label="B")
+        G1.add_edge("A", "B", label="a-b")
+        G2 = nx.Graph()
+        G2.add_node("A", label="A")
+        G2.add_node("B", label="B")
+        G2.add_node("C", label="C")
+        G2.add_edge("A", "B", label="a-b")
+        G2.add_edge("A", "C", label="a-c")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 2
+
+    def testGraph1(self):
+        G1 = getCanonical()
+        G2 = nx.Graph()
+        G2.add_node("A", label="A")
+        G2.add_node("B", label="B")
+        G2.add_node("D", label="D")
+        G2.add_node("E", label="E")
+        G2.add_edge("A", "B", label="a-b")
+        G2.add_edge("B", "D", label="b-d")
+        G2.add_edge("D", "E", label="d-e")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 3
+
+    def testGraph2(self):
+        G1 = getCanonical()
+        G2 = nx.Graph()
+        G2.add_node("A", label="A")
+        G2.add_node("B", label="B")
+        G2.add_node("C", label="C")
+        G2.add_node("D", label="D")
+        G2.add_node("E", label="E")
+        G2.add_edge("A", "B", label="a-b")
+        G2.add_edge("B", "C", label="b-c")
+        G2.add_edge("C", "D", label="c-d")
+        G2.add_edge("C", "E", label="c-e")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 4
+
+    def testGraph3(self):
+        G1 = getCanonical()
+        G2 = nx.Graph()
+        G2.add_node("A", label="A")
+        G2.add_node("B", label="B")
+        G2.add_node("C", label="C")
+        G2.add_node("D", label="D")
+        G2.add_node("E", label="E")
+        G2.add_node("F", label="F")
+        G2.add_node("G", label="G")
+        G2.add_edge("A", "C", label="a-c")
+        G2.add_edge("A", "D", label="a-d")
+        G2.add_edge("D", "E", label="d-e")
+        G2.add_edge("D", "F", label="d-f")
+        G2.add_edge("D", "G", label="d-g")
+        G2.add_edge("E", "B", label="e-b")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 12
+
+    def testGraph4(self):
+        G1 = getCanonical()
+        G2 = nx.Graph()
+        G2.add_node("A", label="A")
+        G2.add_node("B", label="B")
+        G2.add_node("C", label="C")
+        G2.add_node("D", label="D")
+        G2.add_edge("A", "B", label="a-b")
+        G2.add_edge("B", "C", label="b-c")
+        G2.add_edge("C", "D", label="c-d")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 2
+
+    def testGraph4_a(self):
+        G1 = getCanonical()
+        G2 = nx.Graph()
+        G2.add_node("A", label="A")
+        G2.add_node("B", label="B")
+        G2.add_node("C", label="C")
+        G2.add_node("D", label="D")
+        G2.add_edge("A", "B", label="a-b")
+        G2.add_edge("B", "C", label="b-c")
+        G2.add_edge("A", "D", label="a-d")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 2
+
+    def testGraph4_b(self):
+        G1 = getCanonical()
+        G2 = nx.Graph()
+        G2.add_node("A", label="A")
+        G2.add_node("B", label="B")
+        G2.add_node("C", label="C")
+        G2.add_node("D", label="D")
+        G2.add_edge("A", "B", label="a-b")
+        G2.add_edge("B", "C", label="b-c")
+        G2.add_edge("B", "D", label="bad")
+        assert graph_edit_distance(G1, G2, node_match=nmatch, edge_match=ematch) == 1
+
+    # note: nx.simrank_similarity_numpy not included because returns np.array
+    simrank_algs = [
+        nx.simrank_similarity,
+        nx.algorithms.similarity._simrank_similarity_python,
+    ]
+
+    @pytest.mark.parametrize("simrank_similarity", simrank_algs)
+    def test_simrank_no_source_no_target(self, simrank_similarity):
+        G = nx.cycle_graph(5)
+        expected = {
+            0: {
+                0: 1,
+                1: 0.3951219505902448,
+                2: 0.5707317069281646,
+                3: 0.5707317069281646,
+                4: 0.3951219505902449,
+            },
+            1: {
+                0: 0.3951219505902448,
+                1: 1,
+                2: 0.3951219505902449,
+                3: 0.5707317069281646,
+                4: 0.5707317069281646,
+            },
+            2: {
+                0: 0.5707317069281646,
+                1: 0.3951219505902449,
+                2: 1,
+                3: 0.3951219505902449,
+                4: 0.5707317069281646,
+            },
+            3: {
+                0: 0.5707317069281646,
+                1: 0.5707317069281646,
+                2: 0.3951219505902449,
+                3: 1,
+                4: 0.3951219505902449,
+            },
+            4: {
+                0: 0.3951219505902449,
+                1: 0.5707317069281646,
+                2: 0.5707317069281646,
+                3: 0.3951219505902449,
+                4: 1,
+            },
+        }
+        actual = simrank_similarity(G)
+        for k, v in expected.items():
+            assert v == pytest.approx(actual[k], abs=1e-2)
+
+        # For a DiGraph test, use the first graph from the paper cited in
+        # the docs: https://dl.acm.org/doi/pdf/10.1145/775047.775126
+        G = nx.DiGraph()
+        G.add_node(0, label="Univ")
+        G.add_node(1, label="ProfA")
+        G.add_node(2, label="ProfB")
+        G.add_node(3, label="StudentA")
+        G.add_node(4, label="StudentB")
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 4), (4, 2), (3, 0)])
+
+        expected = {
+            0: {0: 1, 1: 0.0, 2: 0.1323363991265798, 3: 0.0, 4: 0.03387811817640443},
+            1: {0: 0.0, 1: 1, 2: 0.4135512472705618, 3: 0.0, 4: 0.10586911930126384},
+            2: {
+                0: 0.1323363991265798,
+                1: 0.4135512472705618,
+                2: 1,
+                3: 0.04234764772050554,
+                4: 0.08822426608438655,
+            },
+            3: {0: 0.0, 1: 0.0, 2: 0.04234764772050554, 3: 1, 4: 0.3308409978164495},
+            4: {
+                0: 0.03387811817640443,
+                1: 0.10586911930126384,
+                2: 0.08822426608438655,
+                3: 0.3308409978164495,
+                4: 1,
+            },
+        }
+        # Use the importance_factor from the paper to get the same numbers.
+        actual = simrank_similarity(G, importance_factor=0.8)
+        for k, v in expected.items():
+            assert v == pytest.approx(actual[k], abs=1e-2)
+
+    @pytest.mark.parametrize("simrank_similarity", simrank_algs)
+    def test_simrank_source_no_target(self, simrank_similarity):
+        G = nx.cycle_graph(5)
+        expected = {
+            0: 1,
+            1: 0.3951219505902448,
+            2: 0.5707317069281646,
+            3: 0.5707317069281646,
+            4: 0.3951219505902449,
+        }
+        actual = simrank_similarity(G, source=0)
+        assert expected == pytest.approx(actual, abs=1e-2)
+
+        # For a DiGraph test, use the first graph from the paper cited in
+        # the docs: https://dl.acm.org/doi/pdf/10.1145/775047.775126
+        G = nx.DiGraph()
+        G.add_node(0, label="Univ")
+        G.add_node(1, label="ProfA")
+        G.add_node(2, label="ProfB")
+        G.add_node(3, label="StudentA")
+        G.add_node(4, label="StudentB")
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 4), (4, 2), (3, 0)])
+
+        expected = {0: 1, 1: 0.0, 2: 0.1323363991265798, 3: 0.0, 4: 0.03387811817640443}
+        # Use the importance_factor from the paper to get the same numbers.
+        actual = simrank_similarity(G, importance_factor=0.8, source=0)
+        assert expected == pytest.approx(actual, abs=1e-2)
+
+    @pytest.mark.parametrize("simrank_similarity", simrank_algs)
+    def test_simrank_noninteger_nodes(self, simrank_similarity):
+        G = nx.cycle_graph(5)
+        G = nx.relabel_nodes(G, dict(enumerate("abcde")))
+        expected = {
+            "a": 1,
+            "b": 0.3951219505902448,
+            "c": 0.5707317069281646,
+            "d": 0.5707317069281646,
+            "e": 0.3951219505902449,
+        }
+        actual = simrank_similarity(G, source="a")
+        assert expected == pytest.approx(actual, abs=1e-2)
+
+        # For a DiGraph test, use the first graph from the paper cited in
+        # the docs: https://dl.acm.org/doi/pdf/10.1145/775047.775126
+        G = nx.DiGraph()
+        G.add_node(0, label="Univ")
+        G.add_node(1, label="ProfA")
+        G.add_node(2, label="ProfB")
+        G.add_node(3, label="StudentA")
+        G.add_node(4, label="StudentB")
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 4), (4, 2), (3, 0)])
+        node_labels = dict(enumerate(nx.get_node_attributes(G, "label").values()))
+        G = nx.relabel_nodes(G, node_labels)
+
+        expected = {
+            "Univ": 1,
+            "ProfA": 0.0,
+            "ProfB": 0.1323363991265798,
+            "StudentA": 0.0,
+            "StudentB": 0.03387811817640443,
+        }
+        # Use the importance_factor from the paper to get the same numbers.
+        actual = simrank_similarity(G, importance_factor=0.8, source="Univ")
+        assert expected == pytest.approx(actual, abs=1e-2)
+
+    @pytest.mark.parametrize("simrank_similarity", simrank_algs)
+    def test_simrank_source_and_target(self, simrank_similarity):
+        G = nx.cycle_graph(5)
+        expected = 1
+        actual = simrank_similarity(G, source=0, target=0)
+        assert expected == pytest.approx(actual, abs=1e-2)
+
+        # For a DiGraph test, use the first graph from the paper cited in
+        # the docs: https://dl.acm.org/doi/pdf/10.1145/775047.775126
+        G = nx.DiGraph()
+        G.add_node(0, label="Univ")
+        G.add_node(1, label="ProfA")
+        G.add_node(2, label="ProfB")
+        G.add_node(3, label="StudentA")
+        G.add_node(4, label="StudentB")
+        G.add_edges_from([(0, 1), (0, 2), (1, 3), (2, 4), (4, 2), (3, 0)])
+
+        expected = 0.1323363991265798
+        # Use the importance_factor from the paper to get the same numbers.
+        # Use the pair (0,2) because (0,0) and (0,1) have trivial results.
+        actual = simrank_similarity(G, importance_factor=0.8, source=0, target=2)
+        assert expected == pytest.approx(actual, abs=1e-5)
+
+    @pytest.mark.parametrize("alg", simrank_algs)
+    def test_simrank_max_iterations(self, alg):
+        G = nx.cycle_graph(5)
+        pytest.raises(nx.ExceededMaxIterations, alg, G, max_iterations=10)
+
+    def test_simrank_source_not_found(self):
+        G = nx.cycle_graph(5)
+        with pytest.raises(nx.NodeNotFound, match="Source node 10 not in G"):
+            nx.simrank_similarity(G, source=10)
+
+    def test_simrank_target_not_found(self):
+        G = nx.cycle_graph(5)
+        with pytest.raises(nx.NodeNotFound, match="Target node 10 not in G"):
+            nx.simrank_similarity(G, target=10)
+
+    def test_simrank_between_versions(self):
+        G = nx.cycle_graph(5)
+        # _python tolerance 1e-4
+        expected_python_tol4 = {
+            0: 1,
+            1: 0.394512499239852,
+            2: 0.5703550452791322,
+            3: 0.5703550452791323,
+            4: 0.394512499239852,
+        }
+        # _numpy tolerance 1e-4
+        expected_numpy_tol4 = {
+            0: 1.0,
+            1: 0.3947180735764555,
+            2: 0.570482097206368,
+            3: 0.570482097206368,
+            4: 0.3947180735764555,
+        }
+        actual = nx.simrank_similarity(G, source=0)
+        assert expected_numpy_tol4 == pytest.approx(actual, abs=1e-7)
+        # versions differ at 1e-4 level but equal at 1e-3
+        assert expected_python_tol4 != pytest.approx(actual, abs=1e-4)
+        assert expected_python_tol4 == pytest.approx(actual, abs=1e-3)
+
+        actual = nx.similarity._simrank_similarity_python(G, source=0)
+        assert expected_python_tol4 == pytest.approx(actual, abs=1e-7)
+        # versions differ at 1e-4 level but equal at 1e-3
+        assert expected_numpy_tol4 != pytest.approx(actual, abs=1e-4)
+        assert expected_numpy_tol4 == pytest.approx(actual, abs=1e-3)
+
+    def test_simrank_numpy_no_source_no_target(self):
+        G = nx.cycle_graph(5)
+        expected = np.array(
+            [
+                [
+                    1.0,
+                    0.3947180735764555,
+                    0.570482097206368,
+                    0.570482097206368,
+                    0.3947180735764555,
+                ],
+                [
+                    0.3947180735764555,
+                    1.0,
+                    0.3947180735764555,
+                    0.570482097206368,
+                    0.570482097206368,
+                ],
+                [
+                    0.570482097206368,
+                    0.3947180735764555,
+                    1.0,
+                    0.3947180735764555,
+                    0.570482097206368,
+                ],
+                [
+                    0.570482097206368,
+                    0.570482097206368,
+                    0.3947180735764555,
+                    1.0,
+                    0.3947180735764555,
+                ],
+                [
+                    0.3947180735764555,
+                    0.570482097206368,
+                    0.570482097206368,
+                    0.3947180735764555,
+                    1.0,
+                ],
+            ]
+        )
+        actual = nx.similarity._simrank_similarity_numpy(G)
+        np.testing.assert_allclose(expected, actual, atol=1e-7)
+
+    def test_simrank_numpy_source_no_target(self):
+        G = nx.cycle_graph(5)
+        expected = np.array(
+            [
+                1.0,
+                0.3947180735764555,
+                0.570482097206368,
+                0.570482097206368,
+                0.3947180735764555,
+            ]
+        )
+        actual = nx.similarity._simrank_similarity_numpy(G, source=0)
+        np.testing.assert_allclose(expected, actual, atol=1e-7)
+
+    def test_simrank_numpy_source_and_target(self):
+        G = nx.cycle_graph(5)
+        expected = 1.0
+        actual = nx.similarity._simrank_similarity_numpy(G, source=0, target=0)
+        np.testing.assert_allclose(expected, actual, atol=1e-7)
+
+    def test_panther_similarity_unweighted(self):
+        np.random.seed(42)
+
+        G = nx.Graph()
+        G.add_edge(0, 1)
+        G.add_edge(0, 2)
+        G.add_edge(0, 3)
+        G.add_edge(1, 2)
+        G.add_edge(2, 4)
+        expected = {3: 0.5, 2: 0.5, 1: 0.5, 4: 0.125}
+        sim = nx.panther_similarity(G, 0, path_length=2)
+        assert sim == expected
+
+    def test_panther_similarity_weighted(self):
+        np.random.seed(42)
+
+        G = nx.Graph()
+        G.add_edge("v1", "v2", w=5)
+        G.add_edge("v1", "v3", w=1)
+        G.add_edge("v1", "v4", w=2)
+        G.add_edge("v2", "v3", w=0.1)
+        G.add_edge("v3", "v5", w=1)
+        expected = {"v3": 0.75, "v4": 0.5, "v2": 0.5, "v5": 0.25}
+        sim = nx.panther_similarity(G, "v1", path_length=2, weight="w")
+        assert sim == expected
+
+    def test_panther_similarity_source_not_found(self):
+        G = nx.Graph()
+        G.add_edges_from([(0, 1), (0, 2), (0, 3), (1, 2), (2, 4)])
+        with pytest.raises(nx.NodeNotFound, match="Source node 10 not in G"):
+            nx.panther_similarity(G, source=10)
+
+    def test_panther_similarity_isolated(self):
+        G = nx.Graph()
+        G.add_nodes_from(range(5))
+        with pytest.raises(
+            nx.NetworkXUnfeasible,
+            match="Panther similarity is not defined for the isolated source node 1.",
+        ):
+            nx.panther_similarity(G, source=1)
+
+    def test_generate_random_paths_unweighted(self):
+        index_map = {}
+        num_paths = 10
+        path_length = 2
+        G = nx.Graph()
+        G.add_edge(0, 1)
+        G.add_edge(0, 2)
+        G.add_edge(0, 3)
+        G.add_edge(1, 2)
+        G.add_edge(2, 4)
+        paths = nx.generate_random_paths(
+            G, num_paths, path_length=path_length, index_map=index_map, seed=42
+        )
+        expected_paths = [
+            [3, 0, 3],
+            [4, 2, 1],
+            [2, 1, 0],
+            [2, 0, 3],
+            [3, 0, 1],
+            [3, 0, 1],
+            [4, 2, 0],
+            [2, 1, 0],
+            [3, 0, 2],
+            [2, 1, 2],
+        ]
+        expected_map = {
+            0: {0, 2, 3, 4, 5, 6, 7, 8},
+            1: {1, 2, 4, 5, 7, 9},
+            2: {1, 2, 3, 6, 7, 8, 9},
+            3: {0, 3, 4, 5, 8},
+            4: {1, 6},
+        }
+
+        assert expected_paths == list(paths)
+        assert expected_map == index_map
+
+    def test_generate_random_paths_weighted(self):
+        np.random.seed(42)
+
+        index_map = {}
+        num_paths = 10
+        path_length = 6
+        G = nx.Graph()
+        G.add_edge("a", "b", weight=0.6)
+        G.add_edge("a", "c", weight=0.2)
+        G.add_edge("c", "d", weight=0.1)
+        G.add_edge("c", "e", weight=0.7)
+        G.add_edge("c", "f", weight=0.9)
+        G.add_edge("a", "d", weight=0.3)
+        paths = nx.generate_random_paths(
+            G, num_paths, path_length=path_length, index_map=index_map
+        )
+
+        expected_paths = [
+            ["d", "c", "f", "c", "d", "a", "b"],
+            ["e", "c", "f", "c", "f", "c", "e"],
+            ["d", "a", "b", "a", "b", "a", "c"],
+            ["b", "a", "d", "a", "b", "a", "b"],
+            ["d", "a", "b", "a", "b", "a", "d"],
+            ["d", "a", "b", "a", "b", "a", "c"],
+            ["d", "a", "b", "a", "b", "a", "b"],
+            ["f", "c", "f", "c", "f", "c", "e"],
+            ["d", "a", "d", "a", "b", "a", "b"],
+            ["e", "c", "f", "c", "e", "c", "d"],
+        ]
+        expected_map = {
+            "d": {0, 2, 3, 4, 5, 6, 8, 9},
+            "c": {0, 1, 2, 5, 7, 9},
+            "f": {0, 1, 9, 7},
+            "a": {0, 2, 3, 4, 5, 6, 8},
+            "b": {0, 2, 3, 4, 5, 6, 8},
+            "e": {1, 9, 7},
+        }
+
+        assert expected_paths == list(paths)
+        assert expected_map == index_map
+
+    def test_symmetry_with_custom_matching(self):
+        print("G2 is edge (a,b) and G3 is edge (a,a)")
+        print("but node order for G2 is (a,b) while for G3 it is (b,a)")
+
+        a, b = "A", "B"
+        G2 = nx.Graph()
+        G2.add_nodes_from((a, b))
+        G2.add_edges_from([(a, b)])
+        G3 = nx.Graph()
+        G3.add_nodes_from((b, a))
+        G3.add_edges_from([(a, a)])
+        for G in (G2, G3):
+            for n in G:
+                G.nodes[n]["attr"] = n
+            for e in G.edges:
+                G.edges[e]["attr"] = e
+        match = lambda x, y: x == y
+
+        print("Starting G2 to G3 GED calculation")
+        assert nx.graph_edit_distance(G2, G3, node_match=match, edge_match=match) == 1
+
+        print("Starting G3 to G2 GED calculation")
+        assert nx.graph_edit_distance(G3, G2, node_match=match, edge_match=match) == 1

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_simple_paths.py

@@ -0,0 +1,792 @@
+import random
+
+import pytest
+
+import networkx as nx
+from networkx import convert_node_labels_to_integers as cnlti
+from networkx.algorithms.simple_paths import (
+    _bidirectional_dijkstra,
+    _bidirectional_shortest_path,
+)
+from networkx.utils import arbitrary_element, pairwise
+
+
+class TestIsSimplePath:
+    """Unit tests for the
+    :func:`networkx.algorithms.simple_paths.is_simple_path` function.
+
+    """
+
+    def test_empty_list(self):
+        """Tests that the empty list is not a valid path, since there
+        should be a one-to-one correspondence between paths as lists of
+        nodes and paths as lists of edges.
+
+        """
+        G = nx.trivial_graph()
+        assert not nx.is_simple_path(G, [])
+
+    def test_trivial_path(self):
+        """Tests that the trivial path, a path of length one, is
+        considered a simple path in a graph.
+
+        """
+        G = nx.trivial_graph()
+        assert nx.is_simple_path(G, [0])
+
+    def test_trivial_nonpath(self):
+        """Tests that a list whose sole element is an object not in the
+        graph is not considered a simple path.
+
+        """
+        G = nx.trivial_graph()
+        assert not nx.is_simple_path(G, ["not a node"])
+
+    def test_simple_path(self):
+        G = nx.path_graph(2)
+        assert nx.is_simple_path(G, [0, 1])
+
+    def test_non_simple_path(self):
+        G = nx.path_graph(2)
+        assert not nx.is_simple_path(G, [0, 1, 0])
+
+    def test_cycle(self):
+        G = nx.cycle_graph(3)
+        assert not nx.is_simple_path(G, [0, 1, 2, 0])
+
+    def test_missing_node(self):
+        G = nx.path_graph(2)
+        assert not nx.is_simple_path(G, [0, 2])
+
+    def test_missing_starting_node(self):
+        G = nx.path_graph(2)
+        assert not nx.is_simple_path(G, [2, 0])
+
+    def test_directed_path(self):
+        G = nx.DiGraph([(0, 1), (1, 2)])
+        assert nx.is_simple_path(G, [0, 1, 2])
+
+    def test_directed_non_path(self):
+        G = nx.DiGraph([(0, 1), (1, 2)])
+        assert not nx.is_simple_path(G, [2, 1, 0])
+
+    def test_directed_cycle(self):
+        G = nx.DiGraph([(0, 1), (1, 2), (2, 0)])
+        assert not nx.is_simple_path(G, [0, 1, 2, 0])
+
+    def test_multigraph(self):
+        G = nx.MultiGraph([(0, 1), (0, 1)])
+        assert nx.is_simple_path(G, [0, 1])
+
+    def test_multidigraph(self):
+        G = nx.MultiDiGraph([(0, 1), (0, 1), (1, 0), (1, 0)])
+        assert nx.is_simple_path(G, [0, 1])
+
+
+# Tests for all_simple_paths
+def test_all_simple_paths():
+    G = nx.path_graph(4)
+    paths = nx.all_simple_paths(G, 0, 3)
+    assert {tuple(p) for p in paths} == {(0, 1, 2, 3)}
+
+
+def test_all_simple_paths_with_two_targets_emits_two_paths():
+    G = nx.path_graph(4)
+    G.add_edge(2, 4)
+    paths = nx.all_simple_paths(G, 0, [3, 4])
+    assert {tuple(p) for p in paths} == {(0, 1, 2, 3), (0, 1, 2, 4)}
+
+
+def test_digraph_all_simple_paths_with_two_targets_emits_two_paths():
+    G = nx.path_graph(4, create_using=nx.DiGraph())
+    G.add_edge(2, 4)
+    paths = nx.all_simple_paths(G, 0, [3, 4])
+    assert {tuple(p) for p in paths} == {(0, 1, 2, 3), (0, 1, 2, 4)}
+
+
+def test_all_simple_paths_with_two_targets_cutoff():
+    G = nx.path_graph(4)
+    G.add_edge(2, 4)
+    paths = nx.all_simple_paths(G, 0, [3, 4], cutoff=3)
+    assert {tuple(p) for p in paths} == {(0, 1, 2, 3), (0, 1, 2, 4)}
+
+
+def test_digraph_all_simple_paths_with_two_targets_cutoff():
+    G = nx.path_graph(4, create_using=nx.DiGraph())
+    G.add_edge(2, 4)
+    paths = nx.all_simple_paths(G, 0, [3, 4], cutoff=3)
+    assert {tuple(p) for p in paths} == {(0, 1, 2, 3), (0, 1, 2, 4)}
+
+
+def test_all_simple_paths_with_two_targets_in_line_emits_two_paths():
+    G = nx.path_graph(4)
+    paths = nx.all_simple_paths(G, 0, [2, 3])
+    assert {tuple(p) for p in paths} == {(0, 1, 2), (0, 1, 2, 3)}
+
+
+def test_all_simple_paths_ignores_cycle():
+    G = nx.cycle_graph(3, create_using=nx.DiGraph())
+    G.add_edge(1, 3)
+    paths = nx.all_simple_paths(G, 0, 3)
+    assert {tuple(p) for p in paths} == {(0, 1, 3)}
+
+
+def test_all_simple_paths_with_two_targets_inside_cycle_emits_two_paths():
+    G = nx.cycle_graph(3, create_using=nx.DiGraph())
+    G.add_edge(1, 3)
+    paths = nx.all_simple_paths(G, 0, [2, 3])
+    assert {tuple(p) for p in paths} == {(0, 1, 2), (0, 1, 3)}
+
+
+def test_all_simple_paths_source_target():
+    G = nx.path_graph(4)
+    assert list(nx.all_simple_paths(G, 1, 1)) == [[1]]
+
+
+def test_all_simple_paths_cutoff():
+    G = nx.complete_graph(4)
+    paths = nx.all_simple_paths(G, 0, 1, cutoff=1)
+    assert {tuple(p) for p in paths} == {(0, 1)}
+    paths = nx.all_simple_paths(G, 0, 1, cutoff=2)
+    assert {tuple(p) for p in paths} == {(0, 1), (0, 2, 1), (0, 3, 1)}
+
+
+def test_all_simple_paths_on_non_trivial_graph():
+    """you may need to draw this graph to make sure it is reasonable"""
+    G = nx.path_graph(5, create_using=nx.DiGraph())
+    G.add_edges_from([(0, 5), (1, 5), (1, 3), (5, 4), (4, 2), (4, 3)])
+    paths = nx.all_simple_paths(G, 1, [2, 3])
+    assert {tuple(p) for p in paths} == {
+        (1, 2),
+        (1, 3, 4, 2),
+        (1, 5, 4, 2),
+        (1, 3),
+        (1, 2, 3),
+        (1, 5, 4, 3),
+        (1, 5, 4, 2, 3),
+    }
+    paths = nx.all_simple_paths(G, 1, [2, 3], cutoff=3)
+    assert {tuple(p) for p in paths} == {
+        (1, 2),
+        (1, 3, 4, 2),
+        (1, 5, 4, 2),
+        (1, 3),
+        (1, 2, 3),
+        (1, 5, 4, 3),
+    }
+    paths = nx.all_simple_paths(G, 1, [2, 3], cutoff=2)
+    assert {tuple(p) for p in paths} == {(1, 2), (1, 3), (1, 2, 3)}
+
+
+def test_all_simple_paths_multigraph():
+    G = nx.MultiGraph([(1, 2), (1, 2)])
+    assert list(nx.all_simple_paths(G, 1, 1)) == [[1]]
+    nx.add_path(G, [3, 1, 10, 2])
+    paths = list(nx.all_simple_paths(G, 1, 2))
+    assert len(paths) == 3
+    assert {tuple(p) for p in paths} == {(1, 2), (1, 2), (1, 10, 2)}
+
+
+def test_all_simple_paths_multigraph_with_cutoff():
+    G = nx.MultiGraph([(1, 2), (1, 2), (1, 10), (10, 2)])
+    paths = list(nx.all_simple_paths(G, 1, 2, cutoff=1))
+    assert len(paths) == 2
+    assert {tuple(p) for p in paths} == {(1, 2), (1, 2)}
+
+    # See GitHub issue #6732.
+    G = nx.MultiGraph([(0, 1), (0, 2)])
+    assert list(nx.all_simple_paths(G, 0, {1, 2}, cutoff=1)) == [[0, 1], [0, 2]]
+
+
+def test_all_simple_paths_directed():
+    G = nx.DiGraph()
+    nx.add_path(G, [1, 2, 3])
+    nx.add_path(G, [3, 2, 1])
+    paths = nx.all_simple_paths(G, 1, 3)
+    assert {tuple(p) for p in paths} == {(1, 2, 3)}
+
+
+def test_all_simple_paths_empty():
+    G = nx.path_graph(4)
+    paths = nx.all_simple_paths(G, 0, 3, cutoff=2)
+    assert list(paths) == []
+
+
+def test_all_simple_paths_corner_cases():
+    assert list(nx.all_simple_paths(nx.empty_graph(2), 0, 0)) == [[0]]
+    assert list(nx.all_simple_paths(nx.empty_graph(2), 0, 1)) == []
+    assert list(nx.all_simple_paths(nx.path_graph(9), 0, 8, 0)) == []
+
+
+def test_all_simple_paths_source_in_targets():
+    # See GitHub issue #6690.
+    G = nx.path_graph(3)
+    assert list(nx.all_simple_paths(G, 0, {0, 1, 2})) == [[0], [0, 1], [0, 1, 2]]
+
+
+def hamiltonian_path(G, source):
+    source = arbitrary_element(G)
+    neighbors = set(G[source]) - {source}
+    n = len(G)
+    for target in neighbors:
+        for path in nx.all_simple_paths(G, source, target):
+            if len(path) == n:
+                yield path
+
+
+def test_hamiltonian_path():
+    from itertools import permutations
+
+    G = nx.complete_graph(4)
+    paths = [list(p) for p in hamiltonian_path(G, 0)]
+    exact = [[0] + list(p) for p in permutations([1, 2, 3], 3)]
+    assert sorted(paths) == sorted(exact)
+
+
+def test_cutoff_zero():
+    G = nx.complete_graph(4)
+    paths = nx.all_simple_paths(G, 0, 3, cutoff=0)
+    assert [list(p) for p in paths] == []
+    paths = nx.all_simple_paths(nx.MultiGraph(G), 0, 3, cutoff=0)
+    assert [list(p) for p in paths] == []
+
+
+def test_source_missing():
+    with pytest.raises(nx.NodeNotFound):
+        G = nx.Graph()
+        nx.add_path(G, [1, 2, 3])
+        list(nx.all_simple_paths(nx.MultiGraph(G), 0, 3))
+
+
+def test_target_missing():
+    with pytest.raises(nx.NodeNotFound):
+        G = nx.Graph()
+        nx.add_path(G, [1, 2, 3])
+        list(nx.all_simple_paths(nx.MultiGraph(G), 1, 4))
+
+
+# Tests for all_simple_edge_paths
+def test_all_simple_edge_paths():
+    G = nx.path_graph(4)
+    paths = nx.all_simple_edge_paths(G, 0, 3)
+    assert {tuple(p) for p in paths} == {((0, 1), (1, 2), (2, 3))}
+
+
+def test_all_simple_edge_paths_empty_path():
+    G = nx.empty_graph(1)
+    assert list(nx.all_simple_edge_paths(G, 0, 0)) == [[]]
+
+
+def test_all_simple_edge_paths_with_two_targets_emits_two_paths():
+    G = nx.path_graph(4)
+    G.add_edge(2, 4)
+    paths = nx.all_simple_edge_paths(G, 0, [3, 4])
+    assert {tuple(p) for p in paths} == {
+        ((0, 1), (1, 2), (2, 3)),
+        ((0, 1), (1, 2), (2, 4)),
+    }
+
+
+def test_digraph_all_simple_edge_paths_with_two_targets_emits_two_paths():
+    G = nx.path_graph(4, create_using=nx.DiGraph())
+    G.add_edge(2, 4)
+    paths = nx.all_simple_edge_paths(G, 0, [3, 4])
+    assert {tuple(p) for p in paths} == {
+        ((0, 1), (1, 2), (2, 3)),
+        ((0, 1), (1, 2), (2, 4)),
+    }
+
+
+def test_all_simple_edge_paths_with_two_targets_cutoff():
+    G = nx.path_graph(4)
+    G.add_edge(2, 4)
+    paths = nx.all_simple_edge_paths(G, 0, [3, 4], cutoff=3)
+    assert {tuple(p) for p in paths} == {
+        ((0, 1), (1, 2), (2, 3)),
+        ((0, 1), (1, 2), (2, 4)),
+    }
+
+
+def test_digraph_all_simple_edge_paths_with_two_targets_cutoff():
+    G = nx.path_graph(4, create_using=nx.DiGraph())
+    G.add_edge(2, 4)
+    paths = nx.all_simple_edge_paths(G, 0, [3, 4], cutoff=3)
+    assert {tuple(p) for p in paths} == {
+        ((0, 1), (1, 2), (2, 3)),
+        ((0, 1), (1, 2), (2, 4)),
+    }
+
+
+def test_all_simple_edge_paths_with_two_targets_in_line_emits_two_paths():
+    G = nx.path_graph(4)
+    paths = nx.all_simple_edge_paths(G, 0, [2, 3])
+    assert {tuple(p) for p in paths} == {((0, 1), (1, 2)), ((0, 1), (1, 2), (2, 3))}
+
+
+def test_all_simple_edge_paths_ignores_cycle():
+    G = nx.cycle_graph(3, create_using=nx.DiGraph())
+    G.add_edge(1, 3)
+    paths = nx.all_simple_edge_paths(G, 0, 3)
+    assert {tuple(p) for p in paths} == {((0, 1), (1, 3))}
+
+
+def test_all_simple_edge_paths_with_two_targets_inside_cycle_emits_two_paths():
+    G = nx.cycle_graph(3, create_using=nx.DiGraph())
+    G.add_edge(1, 3)
+    paths = nx.all_simple_edge_paths(G, 0, [2, 3])
+    assert {tuple(p) for p in paths} == {((0, 1), (1, 2)), ((0, 1), (1, 3))}
+
+
+def test_all_simple_edge_paths_source_target():
+    G = nx.path_graph(4)
+    paths = nx.all_simple_edge_paths(G, 1, 1)
+    assert list(paths) == [[]]
+
+
+def test_all_simple_edge_paths_cutoff():
+    G = nx.complete_graph(4)
+    paths = nx.all_simple_edge_paths(G, 0, 1, cutoff=1)
+    assert {tuple(p) for p in paths} == {((0, 1),)}
+    paths = nx.all_simple_edge_paths(G, 0, 1, cutoff=2)
+    assert {tuple(p) for p in paths} == {((0, 1),), ((0, 2), (2, 1)), ((0, 3), (3, 1))}
+
+
+def test_all_simple_edge_paths_on_non_trivial_graph():
+    """you may need to draw this graph to make sure it is reasonable"""
+    G = nx.path_graph(5, create_using=nx.DiGraph())
+    G.add_edges_from([(0, 5), (1, 5), (1, 3), (5, 4), (4, 2), (4, 3)])
+    paths = nx.all_simple_edge_paths(G, 1, [2, 3])
+    assert {tuple(p) for p in paths} == {
+        ((1, 2),),
+        ((1, 3), (3, 4), (4, 2)),
+        ((1, 5), (5, 4), (4, 2)),
+        ((1, 3),),
+        ((1, 2), (2, 3)),
+        ((1, 5), (5, 4), (4, 3)),
+        ((1, 5), (5, 4), (4, 2), (2, 3)),
+    }
+    paths = nx.all_simple_edge_paths(G, 1, [2, 3], cutoff=3)
+    assert {tuple(p) for p in paths} == {
+        ((1, 2),),
+        ((1, 3), (3, 4), (4, 2)),
+        ((1, 5), (5, 4), (4, 2)),
+        ((1, 3),),
+        ((1, 2), (2, 3)),
+        ((1, 5), (5, 4), (4, 3)),
+    }
+    paths = nx.all_simple_edge_paths(G, 1, [2, 3], cutoff=2)
+    assert {tuple(p) for p in paths} == {((1, 2),), ((1, 3),), ((1, 2), (2, 3))}
+
+
+def test_all_simple_edge_paths_multigraph():
+    G = nx.MultiGraph([(1, 2), (1, 2)])
+    paths = nx.all_simple_edge_paths(G, 1, 1)
+    assert list(paths) == [[]]
+    nx.add_path(G, [3, 1, 10, 2])
+    paths = list(nx.all_simple_edge_paths(G, 1, 2))
+    assert len(paths) == 3
+    assert {tuple(p) for p in paths} == {
+        ((1, 2, 0),),
+        ((1, 2, 1),),
+        ((1, 10, 0), (10, 2, 0)),
+    }
+
+
+def test_all_simple_edge_paths_multigraph_with_cutoff():
+    G = nx.MultiGraph([(1, 2), (1, 2), (1, 10), (10, 2)])
+    paths = list(nx.all_simple_edge_paths(G, 1, 2, cutoff=1))
+    assert len(paths) == 2
+    assert {tuple(p) for p in paths} == {((1, 2, 0),), ((1, 2, 1),)}
+
+
+def test_all_simple_edge_paths_directed():
+    G = nx.DiGraph()
+    nx.add_path(G, [1, 2, 3])
+    nx.add_path(G, [3, 2, 1])
+    paths = nx.all_simple_edge_paths(G, 1, 3)
+    assert {tuple(p) for p in paths} == {((1, 2), (2, 3))}
+
+
+def test_all_simple_edge_paths_empty():
+    G = nx.path_graph(4)
+    paths = nx.all_simple_edge_paths(G, 0, 3, cutoff=2)
+    assert list(paths) == []
+
+
+def test_all_simple_edge_paths_corner_cases():
+    assert list(nx.all_simple_edge_paths(nx.empty_graph(2), 0, 0)) == [[]]
+    assert list(nx.all_simple_edge_paths(nx.empty_graph(2), 0, 1)) == []
+    assert list(nx.all_simple_edge_paths(nx.path_graph(9), 0, 8, 0)) == []
+
+
+def test_all_simple_edge_paths_ignores_self_loop():
+    G = nx.Graph([(0, 0), (0, 1), (1, 1), (1, 2)])
+    assert list(nx.all_simple_edge_paths(G, 0, 2)) == [[(0, 1), (1, 2)]]
+
+
+def hamiltonian_edge_path(G, source):
+    source = arbitrary_element(G)
+    neighbors = set(G[source]) - {source}
+    n = len(G)
+    for target in neighbors:
+        for path in nx.all_simple_edge_paths(G, source, target):
+            if len(path) == n - 1:
+                yield path
+
+
+def test_hamiltonian__edge_path():
+    from itertools import permutations
+
+    G = nx.complete_graph(4)
+    paths = hamiltonian_edge_path(G, 0)
+    exact = [list(pairwise([0] + list(p))) for p in permutations([1, 2, 3], 3)]
+    assert sorted(exact) == sorted(paths)
+
+
+def test_edge_cutoff_zero():
+    G = nx.complete_graph(4)
+    paths = nx.all_simple_edge_paths(G, 0, 3, cutoff=0)
+    assert [list(p) for p in paths] == []
+    paths = nx.all_simple_edge_paths(nx.MultiGraph(G), 0, 3, cutoff=0)
+    assert [list(p) for p in paths] == []
+
+
+def test_edge_source_missing():
+    with pytest.raises(nx.NodeNotFound):
+        G = nx.Graph()
+        nx.add_path(G, [1, 2, 3])
+        list(nx.all_simple_edge_paths(nx.MultiGraph(G), 0, 3))
+
+
+def test_edge_target_missing():
+    with pytest.raises(nx.NodeNotFound):
+        G = nx.Graph()
+        nx.add_path(G, [1, 2, 3])
+        list(nx.all_simple_edge_paths(nx.MultiGraph(G), 1, 4))
+
+
+# Tests for shortest_simple_paths
+def test_shortest_simple_paths():
+    G = cnlti(nx.grid_2d_graph(4, 4), first_label=1, ordering="sorted")
+    paths = nx.shortest_simple_paths(G, 1, 12)
+    assert next(paths) == [1, 2, 3, 4, 8, 12]
+    assert next(paths) == [1, 5, 6, 7, 8, 12]
+    assert [len(path) for path in nx.shortest_simple_paths(G, 1, 12)] == sorted(
+        len(path) for path in nx.all_simple_paths(G, 1, 12)
+    )
+
+
+def test_shortest_simple_paths_singleton_path():
+    G = nx.empty_graph(3)
+    assert list(nx.shortest_simple_paths(G, 0, 0)) == [[0]]
+
+
+def test_shortest_simple_paths_directed():
+    G = nx.cycle_graph(7, create_using=nx.DiGraph())
+    paths = nx.shortest_simple_paths(G, 0, 3)
+    assert list(paths) == [[0, 1, 2, 3]]
+
+
+def test_shortest_simple_paths_directed_with_weight_function():
+    def cost(u, v, x):
+        return 1
+
+    G = cnlti(nx.grid_2d_graph(4, 4), first_label=1, ordering="sorted")
+    paths = nx.shortest_simple_paths(G, 1, 12)
+    assert next(paths) == [1, 2, 3, 4, 8, 12]
+    assert next(paths) == [1, 5, 6, 7, 8, 12]
+    assert [
+        len(path) for path in nx.shortest_simple_paths(G, 1, 12, weight=cost)
+    ] == sorted(len(path) for path in nx.all_simple_paths(G, 1, 12))
+
+
+def test_shortest_simple_paths_with_weight_function():
+    def cost(u, v, x):
+        return 1
+
+    G = nx.cycle_graph(7, create_using=nx.DiGraph())
+    paths = nx.shortest_simple_paths(G, 0, 3, weight=cost)
+    assert list(paths) == [[0, 1, 2, 3]]
+
+
+def test_Greg_Bernstein():
+    g1 = nx.Graph()
+    g1.add_nodes_from(["N0", "N1", "N2", "N3", "N4"])
+    g1.add_edge("N4", "N1", weight=10.0, capacity=50, name="L5")
+    g1.add_edge("N4", "N0", weight=7.0, capacity=40, name="L4")
+    g1.add_edge("N0", "N1", weight=10.0, capacity=45, name="L1")
+    g1.add_edge("N3", "N0", weight=10.0, capacity=50, name="L0")
+    g1.add_edge("N2", "N3", weight=12.0, capacity=30, name="L2")
+    g1.add_edge("N1", "N2", weight=15.0, capacity=42, name="L3")
+    solution = [["N1", "N0", "N3"], ["N1", "N2", "N3"], ["N1", "N4", "N0", "N3"]]
+    result = list(nx.shortest_simple_paths(g1, "N1", "N3", weight="weight"))
+    assert result == solution
+
+
+def test_weighted_shortest_simple_path():
+    def cost_func(path):
+        return sum(G.adj[u][v]["weight"] for (u, v) in zip(path, path[1:]))
+
+    G = nx.complete_graph(5)
+    weight = {(u, v): random.randint(1, 100) for (u, v) in G.edges()}
+    nx.set_edge_attributes(G, weight, "weight")
+    cost = 0
+    for path in nx.shortest_simple_paths(G, 0, 3, weight="weight"):
+        this_cost = cost_func(path)
+        assert cost <= this_cost
+        cost = this_cost
+
+
+def test_directed_weighted_shortest_simple_path():
+    def cost_func(path):
+        return sum(G.adj[u][v]["weight"] for (u, v) in zip(path, path[1:]))
+
+    G = nx.complete_graph(5)
+    G = G.to_directed()
+    weight = {(u, v): random.randint(1, 100) for (u, v) in G.edges()}
+    nx.set_edge_attributes(G, weight, "weight")
+    cost = 0
+    for path in nx.shortest_simple_paths(G, 0, 3, weight="weight"):
+        this_cost = cost_func(path)
+        assert cost <= this_cost
+        cost = this_cost
+
+
+def test_weighted_shortest_simple_path_issue2427():
+    G = nx.Graph()
+    G.add_edge("IN", "OUT", weight=2)
+    G.add_edge("IN", "A", weight=1)
+    G.add_edge("IN", "B", weight=2)
+    G.add_edge("B", "OUT", weight=2)
+    assert list(nx.shortest_simple_paths(G, "IN", "OUT", weight="weight")) == [
+        ["IN", "OUT"],
+        ["IN", "B", "OUT"],
+    ]
+    G = nx.Graph()
+    G.add_edge("IN", "OUT", weight=10)
+    G.add_edge("IN", "A", weight=1)
+    G.add_edge("IN", "B", weight=1)
+    G.add_edge("B", "OUT", weight=1)
+    assert list(nx.shortest_simple_paths(G, "IN", "OUT", weight="weight")) == [
+        ["IN", "B", "OUT"],
+        ["IN", "OUT"],
+    ]
+
+
+def test_directed_weighted_shortest_simple_path_issue2427():
+    G = nx.DiGraph()
+    G.add_edge("IN", "OUT", weight=2)
+    G.add_edge("IN", "A", weight=1)
+    G.add_edge("IN", "B", weight=2)
+    G.add_edge("B", "OUT", weight=2)
+    assert list(nx.shortest_simple_paths(G, "IN", "OUT", weight="weight")) == [
+        ["IN", "OUT"],
+        ["IN", "B", "OUT"],
+    ]
+    G = nx.DiGraph()
+    G.add_edge("IN", "OUT", weight=10)
+    G.add_edge("IN", "A", weight=1)
+    G.add_edge("IN", "B", weight=1)
+    G.add_edge("B", "OUT", weight=1)
+    assert list(nx.shortest_simple_paths(G, "IN", "OUT", weight="weight")) == [
+        ["IN", "B", "OUT"],
+        ["IN", "OUT"],
+    ]
+
+
+def test_weight_name():
+    G = nx.cycle_graph(7)
+    nx.set_edge_attributes(G, 1, "weight")
+    nx.set_edge_attributes(G, 1, "foo")
+    G.adj[1][2]["foo"] = 7
+    paths = list(nx.shortest_simple_paths(G, 0, 3, weight="foo"))
+    solution = [[0, 6, 5, 4, 3], [0, 1, 2, 3]]
+    assert paths == solution
+
+
+def test_ssp_source_missing():
+    with pytest.raises(nx.NodeNotFound):
+        G = nx.Graph()
+        nx.add_path(G, [1, 2, 3])
+        list(nx.shortest_simple_paths(G, 0, 3))
+
+
+def test_ssp_target_missing():
+    with pytest.raises(nx.NodeNotFound):
+        G = nx.Graph()
+        nx.add_path(G, [1, 2, 3])
+        list(nx.shortest_simple_paths(G, 1, 4))
+
+
+def test_ssp_multigraph():
+    with pytest.raises(nx.NetworkXNotImplemented):
+        G = nx.MultiGraph()
+        nx.add_path(G, [1, 2, 3])
+        list(nx.shortest_simple_paths(G, 1, 4))
+
+
+def test_ssp_source_missing2():
+    with pytest.raises(nx.NetworkXNoPath):
+        G = nx.Graph()
+        nx.add_path(G, [0, 1, 2])
+        nx.add_path(G, [3, 4, 5])
+        list(nx.shortest_simple_paths(G, 0, 3))
+
+
+def test_bidirectional_shortest_path_restricted_cycle():
+    cycle = nx.cycle_graph(7)
+    length, path = _bidirectional_shortest_path(cycle, 0, 3)
+    assert path == [0, 1, 2, 3]
+    length, path = _bidirectional_shortest_path(cycle, 0, 3, ignore_nodes=[1])
+    assert path == [0, 6, 5, 4, 3]
+
+
+def test_bidirectional_shortest_path_restricted_wheel():
+    wheel = nx.wheel_graph(6)
+    length, path = _bidirectional_shortest_path(wheel, 1, 3)
+    assert path in [[1, 0, 3], [1, 2, 3]]
+    length, path = _bidirectional_shortest_path(wheel, 1, 3, ignore_nodes=[0])
+    assert path == [1, 2, 3]
+    length, path = _bidirectional_shortest_path(wheel, 1, 3, ignore_nodes=[0, 2])
+    assert path == [1, 5, 4, 3]
+    length, path = _bidirectional_shortest_path(
+        wheel, 1, 3, ignore_edges=[(1, 0), (5, 0), (2, 3)]
+    )
+    assert path in [[1, 2, 0, 3], [1, 5, 4, 3]]
+
+
+def test_bidirectional_shortest_path_restricted_directed_cycle():
+    directed_cycle = nx.cycle_graph(7, create_using=nx.DiGraph())
+    length, path = _bidirectional_shortest_path(directed_cycle, 0, 3)
+    assert path == [0, 1, 2, 3]
+    pytest.raises(
+        nx.NetworkXNoPath,
+        _bidirectional_shortest_path,
+        directed_cycle,
+        0,
+        3,
+        ignore_nodes=[1],
+    )
+    length, path = _bidirectional_shortest_path(
+        directed_cycle, 0, 3, ignore_edges=[(2, 1)]
+    )
+    assert path == [0, 1, 2, 3]
+    pytest.raises(
+        nx.NetworkXNoPath,
+        _bidirectional_shortest_path,
+        directed_cycle,
+        0,
+        3,
+        ignore_edges=[(1, 2)],
+    )
+
+
+def test_bidirectional_shortest_path_ignore():
+    G = nx.Graph()
+    nx.add_path(G, [1, 2])
+    nx.add_path(G, [1, 3])
+    nx.add_path(G, [1, 4])
+    pytest.raises(
+        nx.NetworkXNoPath, _bidirectional_shortest_path, G, 1, 2, ignore_nodes=[1]
+    )
+    pytest.raises(
+        nx.NetworkXNoPath, _bidirectional_shortest_path, G, 1, 2, ignore_nodes=[2]
+    )
+    G = nx.Graph()
+    nx.add_path(G, [1, 3])
+    nx.add_path(G, [1, 4])
+    nx.add_path(G, [3, 2])
+    pytest.raises(
+        nx.NetworkXNoPath, _bidirectional_shortest_path, G, 1, 2, ignore_nodes=[1, 2]
+    )
+
+
+def validate_path(G, s, t, soln_len, path):
+    assert path[0] == s
+    assert path[-1] == t
+    assert soln_len == sum(
+        G[u][v].get("weight", 1) for u, v in zip(path[:-1], path[1:])
+    )
+
+
+def validate_length_path(G, s, t, soln_len, length, path):
+    assert soln_len == length
+    validate_path(G, s, t, length, path)
+
+
+def test_bidirectional_dijkstra_restricted():
+    XG = nx.DiGraph()
+    XG.add_weighted_edges_from(
+        [
+            ("s", "u", 10),
+            ("s", "x", 5),
+            ("u", "v", 1),
+            ("u", "x", 2),
+            ("v", "y", 1),
+            ("x", "u", 3),
+            ("x", "v", 5),
+            ("x", "y", 2),
+            ("y", "s", 7),
+            ("y", "v", 6),
+        ]
+    )
+
+    XG3 = nx.Graph()
+    XG3.add_weighted_edges_from(
+        [[0, 1, 2], [1, 2, 12], [2, 3, 1], [3, 4, 5], [4, 5, 1], [5, 0, 10]]
+    )
+    validate_length_path(XG, "s", "v", 9, *_bidirectional_dijkstra(XG, "s", "v"))
+    validate_length_path(
+        XG, "s", "v", 10, *_bidirectional_dijkstra(XG, "s", "v", ignore_nodes=["u"])
+    )
+    validate_length_path(
+        XG,
+        "s",
+        "v",
+        11,
+        *_bidirectional_dijkstra(XG, "s", "v", ignore_edges=[("s", "x")]),
+    )
+    pytest.raises(
+        nx.NetworkXNoPath,
+        _bidirectional_dijkstra,
+        XG,
+        "s",
+        "v",
+        ignore_nodes=["u"],
+        ignore_edges=[("s", "x")],
+    )
+    validate_length_path(XG3, 0, 3, 15, *_bidirectional_dijkstra(XG3, 0, 3))
+    validate_length_path(
+        XG3, 0, 3, 16, *_bidirectional_dijkstra(XG3, 0, 3, ignore_nodes=[1])
+    )
+    validate_length_path(
+        XG3, 0, 3, 16, *_bidirectional_dijkstra(XG3, 0, 3, ignore_edges=[(2, 3)])
+    )
+    pytest.raises(
+        nx.NetworkXNoPath,
+        _bidirectional_dijkstra,
+        XG3,
+        0,
+        3,
+        ignore_nodes=[1],
+        ignore_edges=[(5, 4)],
+    )
+
+
+def test_bidirectional_dijkstra_no_path():
+    with pytest.raises(nx.NetworkXNoPath):
+        G = nx.Graph()
+        nx.add_path(G, [1, 2, 3])
+        nx.add_path(G, [4, 5, 6])
+        _bidirectional_dijkstra(G, 1, 6)
+
+
+def test_bidirectional_dijkstra_ignore():
+    G = nx.Graph()
+    nx.add_path(G, [1, 2, 10])
+    nx.add_path(G, [1, 3, 10])
+    pytest.raises(nx.NetworkXNoPath, _bidirectional_dijkstra, G, 1, 2, ignore_nodes=[1])
+    pytest.raises(nx.NetworkXNoPath, _bidirectional_dijkstra, G, 1, 2, ignore_nodes=[2])
+    pytest.raises(
+        nx.NetworkXNoPath, _bidirectional_dijkstra, G, 1, 2, ignore_nodes=[1, 2]
+    )

llmeval-env/lib/python3.10/site-packages/networkx/algorithms/tests/test_smallworld.py

@@ -0,0 +1,78 @@
+import pytest
+
+pytest.importorskip("numpy")
+
+import random
+
+import networkx as nx
+from networkx import lattice_reference, omega, random_reference, sigma
+
+rng = 42
+
+
+def test_random_reference():
+    G = nx.connected_watts_strogatz_graph(50, 6, 0.1, seed=rng)
+    Gr = random_reference(G, niter=1, seed=rng)
+    C = nx.average_clustering(G)
+    Cr = nx.average_clustering(Gr)
+    assert C > Cr
+
+    with pytest.raises(nx.NetworkXError):
+        next(random_reference(nx.Graph()))
+    with pytest.raises(nx.NetworkXNotImplemented):
+        next(random_reference(nx.DiGraph()))
+
+    H = nx.Graph(((0, 1), (2, 3)))
+    Hl = random_reference(H, niter=1, seed=rng)
+
+
+def test_lattice_reference():
+    G = nx.connected_watts_strogatz_graph(50, 6, 1, seed=rng)
+    Gl = lattice_reference(G, niter=1, seed=rng)
+    L = nx.average_shortest_path_length(G)
+    Ll = nx.average_shortest_path_length(Gl)
+    assert Ll > L
+
+    pytest.raises(nx.NetworkXError, lattice_reference, nx.Graph())
+    pytest.raises(nx.NetworkXNotImplemented, lattice_reference, nx.DiGraph())
+
+    H = nx.Graph(((0, 1), (2, 3)))
+    Hl = lattice_reference(H, niter=1)
+
+
+def test_sigma():
+    Gs = nx.connected_watts_strogatz_graph(50, 6, 0.1, seed=rng)
+    Gr = nx.connected_watts_strogatz_graph(50, 6, 1, seed=rng)
+    sigmas = sigma(Gs, niter=1, nrand=2, seed=rng)
+    sigmar = sigma(Gr, niter=1, nrand=2, seed=rng)
+    assert sigmar < sigmas
+
+
+def test_omega():
+    Gl = nx.connected_watts_strogatz_graph(50, 6, 0, seed=rng)
+    Gr = nx.connected_watts_strogatz_graph(50, 6, 1, seed=rng)
+    Gs = nx.connected_watts_strogatz_graph(50, 6, 0.1, seed=rng)
+    omegal = omega(Gl, niter=1, nrand=1, seed=rng)
+    omegar = omega(Gr, niter=1, nrand=1, seed=rng)
+    omegas = omega(Gs, niter=1, nrand=1, seed=rng)
+    assert omegal < omegas and omegas < omegar
+
+    # Test that omega lies within the [-1, 1] bounds
+    G_barbell = nx.barbell_graph(5, 1)
+    G_karate = nx.karate_club_graph()
+
+    omega_barbell = nx.omega(G_barbell)
+    omega_karate = nx.omega(G_karate, nrand=2)
+
+    omegas = (omegal, omegar, omegas, omega_barbell, omega_karate)
+
+    for o in omegas:
+        assert -1 <= o <= 1
+
+
+@pytest.mark.parametrize("f", (nx.random_reference, nx.lattice_reference))
+def test_graph_no_edges(f):
+    G = nx.Graph()
+    G.add_nodes_from([0, 1, 2, 3])
+    with pytest.raises(nx.NetworkXError, match="Graph has fewer that 2 edges"):
+        f(G)