| """Functions for finding and manipulating cliques. |
| |
| Finding the largest clique in a graph is NP-complete problem, so most of |
| these algorithms have an exponential running time; for more information, |
| see the Wikipedia article on the clique problem [1]_. |
| |
| .. [1] clique problem:: https://en.wikipedia.org/wiki/Clique_problem |
| |
| """ |
|
|
| from collections import Counter, defaultdict, deque |
| from itertools import chain, combinations, islice |
|
|
| import networkx as nx |
| from networkx.utils import not_implemented_for |
|
|
| __all__ = [ |
| "find_cliques", |
| "find_cliques_recursive", |
| "make_max_clique_graph", |
| "make_clique_bipartite", |
| "node_clique_number", |
| "number_of_cliques", |
| "enumerate_all_cliques", |
| "max_weight_clique", |
| ] |
|
|
|
|
| @not_implemented_for("directed") |
| @nx._dispatchable |
| def enumerate_all_cliques(G): |
| """Returns all cliques in an undirected graph. |
| |
| This function returns an iterator over cliques, each of which is a |
| list of nodes. The iteration is ordered by cardinality of the |
| cliques: first all cliques of size one, then all cliques of size |
| two, etc. |
| |
| Parameters |
| ---------- |
| G : NetworkX graph |
| An undirected graph. |
| |
| Returns |
| ------- |
| iterator |
| An iterator over cliques, each of which is a list of nodes in |
| `G`. The cliques are ordered according to size. |
| |
| Notes |
| ----- |
| To obtain a list of all cliques, use |
| `list(enumerate_all_cliques(G))`. However, be aware that in the |
| worst-case, the length of this list can be exponential in the number |
| of nodes in the graph (for example, when the graph is the complete |
| graph). This function avoids storing all cliques in memory by only |
| keeping current candidate node lists in memory during its search. |
| |
| The implementation is adapted from the algorithm by Zhang, et |
| al. (2005) [1]_ to output all cliques discovered. |
| |
| This algorithm ignores self-loops and parallel edges, since cliques |
| are not conventionally defined with such edges. |
| |
| References |
| ---------- |
| .. [1] Yun Zhang, Abu-Khzam, F.N., Baldwin, N.E., Chesler, E.J., |
| Langston, M.A., Samatova, N.F., |
| "Genome-Scale Computational Approaches to Memory-Intensive |
| Applications in Systems Biology". |
| *Supercomputing*, 2005. Proceedings of the ACM/IEEE SC 2005 |
| Conference, pp. 12, 12--18 Nov. 2005. |
| <https://doi.org/10.1109/SC.2005.29>. |
| |
| """ |
| index = {} |
| nbrs = {} |
| for u in G: |
| index[u] = len(index) |
| |
| nbrs[u] = {v for v in G[u] if v not in index} |
|
|
| queue = deque(([u], sorted(nbrs[u], key=index.__getitem__)) for u in G) |
| |
| |
| |
| |
| while queue: |
| base, cnbrs = map(list, queue.popleft()) |
| yield base |
| for i, u in enumerate(cnbrs): |
| |
| queue.append( |
| ( |
| chain(base, [u]), |
| filter(nbrs[u].__contains__, islice(cnbrs, i + 1, None)), |
| ) |
| ) |
|
|
|
|
| @not_implemented_for("directed") |
| @nx._dispatchable |
| def find_cliques(G, nodes=None): |
| """Returns all maximal cliques in an undirected graph. |
| |
| For each node *n*, a *maximal clique for n* is a largest complete |
| subgraph containing *n*. The largest maximal clique is sometimes |
| called the *maximum clique*. |
| |
| This function returns an iterator over cliques, each of which is a |
| list of nodes. It is an iterative implementation, so should not |
| suffer from recursion depth issues. |
| |
| This function accepts a list of `nodes` and only the maximal cliques |
| containing all of these `nodes` are returned. It can considerably speed up |
| the running time if some specific cliques are desired. |
| |
| Parameters |
| ---------- |
| G : NetworkX graph |
| An undirected graph. |
| |
| nodes : list, optional (default=None) |
| If provided, only yield *maximal cliques* containing all nodes in `nodes`. |
| If `nodes` isn't a clique itself, a ValueError is raised. |
| |
| Returns |
| ------- |
| iterator |
| An iterator over maximal cliques, each of which is a list of |
| nodes in `G`. If `nodes` is provided, only the maximal cliques |
| containing all the nodes in `nodes` are returned. The order of |
| cliques is arbitrary. |
| |
| Raises |
| ------ |
| ValueError |
| If `nodes` is not a clique. |
| |
| Examples |
| -------- |
| >>> from pprint import pprint # For nice dict formatting |
| >>> G = nx.karate_club_graph() |
| >>> sum(1 for c in nx.find_cliques(G)) # The number of maximal cliques in G |
| 36 |
| >>> max(nx.find_cliques(G), key=len) # The largest maximal clique in G |
| [0, 1, 2, 3, 13] |
| |
| The size of the largest maximal clique is known as the *clique number* of |
| the graph, which can be found directly with: |
| |
| >>> max(len(c) for c in nx.find_cliques(G)) |
| 5 |
| |
| One can also compute the number of maximal cliques in `G` that contain a given |
| node. The following produces a dictionary keyed by node whose |
| values are the number of maximal cliques in `G` that contain the node: |
| |
| >>> from collections import Counter |
| >>> from itertools import chain |
| >>> counts = Counter(chain.from_iterable(nx.find_cliques(G))) |
| >>> pprint(dict(counts)) |
| {0: 13, |
| 1: 6, |
| 2: 7, |
| 3: 3, |
| 4: 2, |
| 5: 3, |
| 6: 3, |
| 7: 1, |
| 8: 3, |
| 9: 2, |
| 10: 2, |
| 11: 1, |
| 12: 1, |
| 13: 2, |
| 14: 1, |
| 15: 1, |
| 16: 1, |
| 17: 1, |
| 18: 1, |
| 19: 2, |
| 20: 1, |
| 21: 1, |
| 22: 1, |
| 23: 3, |
| 24: 2, |
| 25: 2, |
| 26: 1, |
| 27: 3, |
| 28: 2, |
| 29: 2, |
| 30: 2, |
| 31: 4, |
| 32: 9, |
| 33: 14} |
| |
| Or, similarly, the maximal cliques in `G` that contain a given node. |
| For example, the 4 maximal cliques that contain node 31: |
| |
| >>> [c for c in nx.find_cliques(G) if 31 in c] |
| [[0, 31], [33, 32, 31], [33, 28, 31], [24, 25, 31]] |
| |
| See Also |
| -------- |
| find_cliques_recursive |
| A recursive version of the same algorithm. |
| |
| Notes |
| ----- |
| To obtain a list of all maximal cliques, use |
| `list(find_cliques(G))`. However, be aware that in the worst-case, |
| the length of this list can be exponential in the number of nodes in |
| the graph. This function avoids storing all cliques in memory by |
| only keeping current candidate node lists in memory during its search. |
| |
| This implementation is based on the algorithm published by Bron and |
| Kerbosch (1973) [1]_, as adapted by Tomita, Tanaka and Takahashi |
| (2006) [2]_ and discussed in Cazals and Karande (2008) [3]_. It |
| essentially unrolls the recursion used in the references to avoid |
| issues of recursion stack depth (for a recursive implementation, see |
| :func:`find_cliques_recursive`). |
| |
| This algorithm ignores self-loops and parallel edges, since cliques |
| are not conventionally defined with such edges. |
| |
| References |
| ---------- |
| .. [1] Bron, C. and Kerbosch, J. |
| "Algorithm 457: finding all cliques of an undirected graph". |
| *Communications of the ACM* 16, 9 (Sep. 1973), 575--577. |
| <http://portal.acm.org/citation.cfm?doid=362342.362367> |
| |
| .. [2] Etsuji Tomita, Akira Tanaka, Haruhisa Takahashi, |
| "The worst-case time complexity for generating all maximal |
| cliques and computational experiments", |
| *Theoretical Computer Science*, Volume 363, Issue 1, |
| Computing and Combinatorics, |
| 10th Annual International Conference on |
| Computing and Combinatorics (COCOON 2004), 25 October 2006, Pages 28--42 |
| <https://doi.org/10.1016/j.tcs.2006.06.015> |
| |
| .. [3] F. Cazals, C. Karande, |
| "A note on the problem of reporting maximal cliques", |
| *Theoretical Computer Science*, |
| Volume 407, Issues 1--3, 6 November 2008, Pages 564--568, |
| <https://doi.org/10.1016/j.tcs.2008.05.010> |
| |
| """ |
| if len(G) == 0: |
| return |
|
|
| adj = {u: {v for v in G[u] if v != u} for u in G} |
|
|
| |
| Q = nodes[:] if nodes is not None else [] |
| cand = set(G) |
| for node in Q: |
| if node not in cand: |
| raise ValueError(f"The given `nodes` {nodes} do not form a clique") |
| cand &= adj[node] |
|
|
| if not cand: |
| yield Q[:] |
| return |
|
|
| subg = cand.copy() |
| stack = [] |
| Q.append(None) |
|
|
| u = max(subg, key=lambda u: len(cand & adj[u])) |
| ext_u = cand - adj[u] |
|
|
| try: |
| while True: |
| if ext_u: |
| q = ext_u.pop() |
| cand.remove(q) |
| Q[-1] = q |
| adj_q = adj[q] |
| subg_q = subg & adj_q |
| if not subg_q: |
| yield Q[:] |
| else: |
| cand_q = cand & adj_q |
| if cand_q: |
| stack.append((subg, cand, ext_u)) |
| Q.append(None) |
| subg = subg_q |
| cand = cand_q |
| u = max(subg, key=lambda u: len(cand & adj[u])) |
| ext_u = cand - adj[u] |
| else: |
| Q.pop() |
| subg, cand, ext_u = stack.pop() |
| except IndexError: |
| pass |
|
|
|
|
| @not_implemented_for("directed") |
| @nx._dispatchable |
| def find_cliques_recursive(G, nodes=None): |
| """Returns all maximal cliques in a graph. |
| |
| For each node *v*, a *maximal clique for v* is a largest complete |
| subgraph containing *v*. The largest maximal clique is sometimes |
| called the *maximum clique*. |
| |
| This function returns an iterator over cliques, each of which is a |
| list of nodes. It is a recursive implementation, so may suffer from |
| recursion depth issues, but is included for pedagogical reasons. |
| For a non-recursive implementation, see :func:`find_cliques`. |
| |
| This function accepts a list of `nodes` and only the maximal cliques |
| containing all of these `nodes` are returned. It can considerably speed up |
| the running time if some specific cliques are desired. |
| |
| Parameters |
| ---------- |
| G : NetworkX graph |
| An undirected graph. |
| |
| nodes : list, optional (default=None) |
| If provided, only yield *maximal cliques* containing all nodes in `nodes`. |
| If `nodes` isn't a clique itself, a ValueError is raised. |
| |
| Returns |
| ------- |
| iterator |
| An iterator over maximal cliques, each of which is a list of |
| nodes in `G`. If `nodes` is provided, only the maximal cliques |
| containing all the nodes in `nodes` are yielded. The order of |
| cliques is arbitrary. |
| |
| Raises |
| ------ |
| NetworkXNotImplemented |
| If `G` is directed. |
| |
| ValueError |
| If `nodes` is not a clique. |
| |
| See Also |
| -------- |
| find_cliques |
| An iterative version of the same algorithm. See docstring for examples. |
| |
| Notes |
| ----- |
| To obtain a list of all maximal cliques, use |
| `list(find_cliques_recursive(G))`. However, be aware that in the |
| worst-case, the length of this list can be exponential in the number |
| of nodes in the graph. This function avoids storing all cliques in memory |
| by only keeping current candidate node lists in memory during its search. |
| |
| This implementation is based on the algorithm published by Bron and |
| Kerbosch (1973) [1]_, as adapted by Tomita, Tanaka and Takahashi |
| (2006) [2]_ and discussed in Cazals and Karande (2008) [3]_. For a |
| non-recursive implementation, see :func:`find_cliques`. |
| |
| This algorithm ignores self-loops and parallel edges, since cliques |
| are not conventionally defined with such edges. |
| |
| References |
| ---------- |
| .. [1] Bron, C. and Kerbosch, J. |
| "Algorithm 457: finding all cliques of an undirected graph". |
| *Communications of the ACM* 16, 9 (Sep. 1973), 575--577. |
| <http://portal.acm.org/citation.cfm?doid=362342.362367> |
| |
| .. [2] Etsuji Tomita, Akira Tanaka, Haruhisa Takahashi, |
| "The worst-case time complexity for generating all maximal |
| cliques and computational experiments", |
| *Theoretical Computer Science*, Volume 363, Issue 1, |
| Computing and Combinatorics, |
| 10th Annual International Conference on |
| Computing and Combinatorics (COCOON 2004), 25 October 2006, Pages 28--42 |
| <https://doi.org/10.1016/j.tcs.2006.06.015> |
| |
| .. [3] F. Cazals, C. Karande, |
| "A note on the problem of reporting maximal cliques", |
| *Theoretical Computer Science*, |
| Volume 407, Issues 1--3, 6 November 2008, Pages 564--568, |
| <https://doi.org/10.1016/j.tcs.2008.05.010> |
| |
| """ |
| if len(G) == 0: |
| return iter([]) |
|
|
| adj = {u: {v for v in G[u] if v != u} for u in G} |
|
|
| |
| Q = nodes[:] if nodes is not None else [] |
| cand_init = set(G) |
| for node in Q: |
| if node not in cand_init: |
| raise ValueError(f"The given `nodes` {nodes} do not form a clique") |
| cand_init &= adj[node] |
|
|
| if not cand_init: |
| return iter([Q]) |
|
|
| subg_init = cand_init.copy() |
|
|
| def expand(subg, cand): |
| u = max(subg, key=lambda u: len(cand & adj[u])) |
| for q in cand - adj[u]: |
| cand.remove(q) |
| Q.append(q) |
| adj_q = adj[q] |
| subg_q = subg & adj_q |
| if not subg_q: |
| yield Q[:] |
| else: |
| cand_q = cand & adj_q |
| if cand_q: |
| yield from expand(subg_q, cand_q) |
| Q.pop() |
|
|
| return expand(subg_init, cand_init) |
|
|
|
|
| @nx._dispatchable(returns_graph=True) |
| def make_max_clique_graph(G, create_using=None): |
| """Returns the maximal clique graph of the given graph. |
| |
| The nodes of the maximal clique graph of `G` are the cliques of |
| `G` and an edge joins two cliques if the cliques are not disjoint. |
| |
| Parameters |
| ---------- |
| G : NetworkX graph |
| |
| create_using : NetworkX graph constructor, optional (default=nx.Graph) |
| Graph type to create. If graph instance, then cleared before populated. |
| |
| Returns |
| ------- |
| NetworkX graph |
| A graph whose nodes are the cliques of `G` and whose edges |
| join two cliques if they are not disjoint. |
| |
| Notes |
| ----- |
| This function behaves like the following code:: |
| |
| import networkx as nx |
| |
| G = nx.make_clique_bipartite(G) |
| cliques = [v for v in G.nodes() if G.nodes[v]["bipartite"] == 0] |
| G = nx.bipartite.projected_graph(G, cliques) |
| G = nx.relabel_nodes(G, {-v: v - 1 for v in G}) |
| |
| It should be faster, though, since it skips all the intermediate |
| steps. |
| |
| """ |
| if create_using is None: |
| B = G.__class__() |
| else: |
| B = nx.empty_graph(0, create_using) |
| cliques = list(enumerate(set(c) for c in find_cliques(G))) |
| |
| B.add_nodes_from(i for i, c in cliques) |
| |
| clique_pairs = combinations(cliques, 2) |
| B.add_edges_from((i, j) for (i, c1), (j, c2) in clique_pairs if c1 & c2) |
| return B |
|
|
|
|
| @nx._dispatchable(returns_graph=True) |
| def make_clique_bipartite(G, fpos=None, create_using=None, name=None): |
| """Returns the bipartite clique graph corresponding to `G`. |
| |
| In the returned bipartite graph, the "bottom" nodes are the nodes of |
| `G` and the "top" nodes represent the maximal cliques of `G`. |
| There is an edge from node *v* to clique *C* in the returned graph |
| if and only if *v* is an element of *C*. |
| |
| Parameters |
| ---------- |
| G : NetworkX graph |
| An undirected graph. |
| |
| fpos : bool |
| If True or not None, the returned graph will have an |
| additional attribute, `pos`, a dictionary mapping node to |
| position in the Euclidean plane. |
| |
| create_using : NetworkX graph constructor, optional (default=nx.Graph) |
| Graph type to create. If graph instance, then cleared before populated. |
| |
| Returns |
| ------- |
| NetworkX graph |
| A bipartite graph whose "bottom" set is the nodes of the graph |
| `G`, whose "top" set is the cliques of `G`, and whose edges |
| join nodes of `G` to the cliques that contain them. |
| |
| The nodes of the graph `G` have the node attribute |
| 'bipartite' set to 1 and the nodes representing cliques |
| have the node attribute 'bipartite' set to 0, as is the |
| convention for bipartite graphs in NetworkX. |
| |
| """ |
| B = nx.empty_graph(0, create_using) |
| B.clear() |
| |
| |
| B.add_nodes_from(G, bipartite=1) |
| for i, cl in enumerate(find_cliques(G)): |
| |
| |
| name = -i - 1 |
| B.add_node(name, bipartite=0) |
| B.add_edges_from((v, name) for v in cl) |
| return B |
|
|
|
|
| @nx._dispatchable |
| def node_clique_number(G, nodes=None, cliques=None, separate_nodes=False): |
| """Returns the size of the largest maximal clique containing each given node. |
| |
| Returns a single or list depending on input nodes. |
| An optional list of cliques can be input if already computed. |
| |
| Parameters |
| ---------- |
| G : NetworkX graph |
| An undirected graph. |
| |
| cliques : list, optional (default=None) |
| A list of cliques, each of which is itself a list of nodes. |
| If not specified, the list of all cliques will be computed |
| using :func:`find_cliques`. |
| |
| Returns |
| ------- |
| int or dict |
| If `nodes` is a single node, returns the size of the |
| largest maximal clique in `G` containing that node. |
| Otherwise return a dict keyed by node to the size |
| of the largest maximal clique containing that node. |
| |
| See Also |
| -------- |
| find_cliques |
| find_cliques yields the maximal cliques of G. |
| It accepts a `nodes` argument which restricts consideration to |
| maximal cliques containing all the given `nodes`. |
| The search for the cliques is optimized for `nodes`. |
| number_of_cliques |
| """ |
| if cliques is None: |
| if nodes is not None: |
| |
| |
| if nodes in G: |
| return max(len(c) for c in find_cliques(nx.ego_graph(G, nodes))) |
| |
| return { |
| n: max(len(c) for c in find_cliques(nx.ego_graph(G, n))) for n in nodes |
| } |
|
|
| |
| cliques = list(find_cliques(G)) |
|
|
| |
| if nodes in G: |
| return max(len(c) for c in cliques if nodes in c) |
|
|
| |
| |
| size_for_n = defaultdict(int) |
| for c in cliques: |
| size_of_c = len(c) |
| for n in c: |
| if size_for_n[n] < size_of_c: |
| size_for_n[n] = size_of_c |
| if nodes is None: |
| return size_for_n |
| return {n: size_for_n[n] for n in nodes} |
|
|
|
|
| def number_of_cliques(G, nodes=None, cliques=None): |
| """Return the number of maximal cliques each node is part of. |
| |
| Output is a single value or dict depending on `nodes`. |
| Optional list of cliques can be input if already computed. |
| |
| Parameters |
| ---------- |
| G : NetworkX graph |
| An undirected graph. |
| |
| nodes : list or None, optional (default=None) |
| A list of nodes to return the number of maximal cliques for. |
| If `None`, return the number of maximal cliques for all nodes. |
| |
| cliques : list or None, optional (default=None) |
| A precomputed list of maximal cliques to use for the calculation. |
| |
| Returns |
| ------- |
| int or dict |
| If `nodes` is a single node, return the number of maximal cliques it is |
| part of. If `nodes` is a list, return a dictionary keyed by node to the |
| number of maximal cliques it is part of. |
| |
| Raises |
| ------ |
| NetworkXNotImplemented |
| If `G` is directed. |
| |
| See Also |
| -------- |
| find_cliques |
| node_clique_number |
| |
| Examples |
| -------- |
| Compute the number of maximal cliques a node is part of: |
| |
| >>> G = nx.complete_graph(3) |
| >>> nx.add_cycle(G, [0, 3, 4]) |
| >>> nx.number_of_cliques(G, nodes=0) |
| 2 |
| >>> nx.number_of_cliques(G, nodes=1) |
| 1 |
| |
| Or, for a list of nodes: |
| |
| >>> nx.number_of_cliques(G, nodes=[0, 1]) |
| {0: 2, 1: 1} |
| |
| If no explicit `nodes` are provided, all nodes are considered: |
| |
| >>> nx.number_of_cliques(G) |
| {0: 2, 1: 1, 2: 1, 3: 1, 4: 1} |
| |
| The list of maximal cliques can also be precomputed: |
| |
| >>> cl = list(nx.find_cliques(G)) |
| >>> nx.number_of_cliques(G, cliques=cl) |
| {0: 2, 1: 1, 2: 1, 3: 1, 4: 1} |
| """ |
| if cliques is None: |
| cliques = find_cliques(G) |
|
|
| if nodes is None: |
| nodes = list(G.nodes()) |
|
|
| if not isinstance(nodes, list): |
| v = nodes |
| |
| numcliq = sum(1 for c in cliques if v in c) |
| else: |
| numcliq = Counter(chain.from_iterable(cliques)) |
| numcliq = {v: numcliq[v] for v in nodes} |
| return numcliq |
|
|
|
|
| class MaxWeightClique: |
| """A class for the maximum weight clique algorithm. |
| |
| This class is a helper for the `max_weight_clique` function. The class |
| should not normally be used directly. |
| |
| Parameters |
| ---------- |
| G : NetworkX graph |
| The undirected graph for which a maximum weight clique is sought |
| weight : string or None, optional (default='weight') |
| The node attribute that holds the integer value used as a weight. |
| If None, then each node has weight 1. |
| |
| Attributes |
| ---------- |
| G : NetworkX graph |
| The undirected graph for which a maximum weight clique is sought |
| node_weights: dict |
| The weight of each node |
| incumbent_nodes : list |
| The nodes of the incumbent clique (the best clique found so far) |
| incumbent_weight: int |
| The weight of the incumbent clique |
| """ |
|
|
| def __init__(self, G, weight): |
| self.G = G |
| self.incumbent_nodes = [] |
| self.incumbent_weight = 0 |
|
|
| if weight is None: |
| self.node_weights = {v: 1 for v in G.nodes()} |
| else: |
| for v in G.nodes(): |
| if weight not in G.nodes[v]: |
| errmsg = f"Node {v!r} does not have the requested weight field." |
| raise KeyError(errmsg) |
| if not isinstance(G.nodes[v][weight], int): |
| errmsg = f"The {weight!r} field of node {v!r} is not an integer." |
| raise ValueError(errmsg) |
| self.node_weights = {v: G.nodes[v][weight] for v in G.nodes()} |
|
|
| def update_incumbent_if_improved(self, C, C_weight): |
| """Update the incumbent if the node set C has greater weight. |
| |
| C is assumed to be a clique. |
| """ |
| if C_weight > self.incumbent_weight: |
| self.incumbent_nodes = C[:] |
| self.incumbent_weight = C_weight |
|
|
| def greedily_find_independent_set(self, P): |
| """Greedily find an independent set of nodes from a set of |
| nodes P.""" |
| independent_set = [] |
| P = P[:] |
| while P: |
| v = P[0] |
| independent_set.append(v) |
| P = [w for w in P if v != w and not self.G.has_edge(v, w)] |
| return independent_set |
|
|
| def find_branching_nodes(self, P, target): |
| """Find a set of nodes to branch on.""" |
| residual_wt = {v: self.node_weights[v] for v in P} |
| total_wt = 0 |
| P = P[:] |
| while P: |
| independent_set = self.greedily_find_independent_set(P) |
| min_wt_in_class = min(residual_wt[v] for v in independent_set) |
| total_wt += min_wt_in_class |
| if total_wt > target: |
| break |
| for v in independent_set: |
| residual_wt[v] -= min_wt_in_class |
| P = [v for v in P if residual_wt[v] != 0] |
| return P |
|
|
| def expand(self, C, C_weight, P): |
| """Look for the best clique that contains all the nodes in C and zero or |
| more of the nodes in P, backtracking if it can be shown that no such |
| clique has greater weight than the incumbent. |
| """ |
| self.update_incumbent_if_improved(C, C_weight) |
| branching_nodes = self.find_branching_nodes(P, self.incumbent_weight - C_weight) |
| while branching_nodes: |
| v = branching_nodes.pop() |
| P.remove(v) |
| new_C = C + [v] |
| new_C_weight = C_weight + self.node_weights[v] |
| new_P = [w for w in P if self.G.has_edge(v, w)] |
| self.expand(new_C, new_C_weight, new_P) |
|
|
| def find_max_weight_clique(self): |
| """Find a maximum weight clique.""" |
| |
| nodes = sorted(self.G.nodes(), key=lambda v: self.G.degree(v), reverse=True) |
| nodes = [v for v in nodes if self.node_weights[v] > 0] |
| self.expand([], 0, nodes) |
|
|
|
|
| @not_implemented_for("directed") |
| @nx._dispatchable(node_attrs="weight") |
| def max_weight_clique(G, weight="weight"): |
| """Find a maximum weight clique in G. |
| |
| A *clique* in a graph is a set of nodes such that every two distinct nodes |
| are adjacent. The *weight* of a clique is the sum of the weights of its |
| nodes. A *maximum weight clique* of graph G is a clique C in G such that |
| no clique in G has weight greater than the weight of C. |
| |
| Parameters |
| ---------- |
| G : NetworkX graph |
| Undirected graph |
| weight : string or None, optional (default='weight') |
| The node attribute that holds the integer value used as a weight. |
| If None, then each node has weight 1. |
| |
| Returns |
| ------- |
| clique : list |
| the nodes of a maximum weight clique |
| weight : int |
| the weight of a maximum weight clique |
| |
| Notes |
| ----- |
| The implementation is recursive, and therefore it may run into recursion |
| depth issues if G contains a clique whose number of nodes is close to the |
| recursion depth limit. |
| |
| At each search node, the algorithm greedily constructs a weighted |
| independent set cover of part of the graph in order to find a small set of |
| nodes on which to branch. The algorithm is very similar to the algorithm |
| of Tavares et al. [1]_, other than the fact that the NetworkX version does |
| not use bitsets. This style of algorithm for maximum weight clique (and |
| maximum weight independent set, which is the same problem but on the |
| complement graph) has a decades-long history. See Algorithm B of Warren |
| and Hicks [2]_ and the references in that paper. |
| |
| References |
| ---------- |
| .. [1] Tavares, W.A., Neto, M.B.C., Rodrigues, C.D., Michelon, P.: Um |
| algoritmo de branch and bound para o problema da clique máxima |
| ponderada. Proceedings of XLVII SBPO 1 (2015). |
| |
| .. [2] Warren, Jeffrey S, Hicks, Illya V.: Combinatorial Branch-and-Bound |
| for the Maximum Weight Independent Set Problem. Technical Report, |
| Texas A&M University (2016). |
| """ |
|
|
| mwc = MaxWeightClique(G, weight) |
| mwc.find_max_weight_clique() |
| return mwc.incumbent_nodes, mwc.incumbent_weight |
|
|