def main():
""" Reads in a value of k and a graph and prints an approximate k-centers solution """
k = int(sys.argv[1])
graph_file_path = sys.argv[2]
input_graph = nx.read_weighted_edgelist(graph_file_path)
# sort the edges of G by nondecreasing weight
all_edges = list(input_graph.edges.items())
all_edges.sort(key=lambda pair: pair[1]['weight'])
# Construct the squares of the edge-induced subgraphs for each edge subset [1..i]
power_graphs = []
for i in range(0, len(all_edges)):
edges_to_remove = list(map(lambda pair: pair[0], all_edges[i + 1:]))
induced_graph = nx.restricted_view(input_graph, [], edges_to_remove)
power_graphs.append(nx.power(induced_graph, 2))
# Compute a maximal independent set for each power graph
# If its size is less than k, return it as our approximate solution
for pow_graph in power_graphs:
indep_set = nx.maximal_independent_set(pow_graph)
if len(indep_set) <= k:
print("k centers are:", indep_set)
break
def average_degree_of_power(self, k):
power_graph = networkx.power(self.graph, k)
vertex_degree_tuples = list(power_graph.degree)
if len(vertex_degree_tuples) == 0:
return 0
return sum([
vertex_degree_tuple[1]
for vertex_degree_tuple in vertex_degree_tuples
]) / len(vertex_degree_tuples)
def power_graph(G, vertices, power):
# for i in range(len(vertices)):
# for j in range(len(vertices)):
# if i != j:
# e = find_edge(G,i,j)
# #ean den uparxei connection
# if e is None:
# dist = shortest_distance(G, i,j)
# if dist == power:
# G.add_edge(i,j)
return nx.power(G, power)
return G
def sparse_mx_to_khopsgraph(sp_mx):
graph = nx.from_scipy_sparse_matrix(sp_mx)
twohops_graph = nx.power(graph, 2)
threehops_graph = nx.power(graph, 3)
fourhops_graph = nx.power(graph, 4)
assert (len(graph) == len(twohops_graph))
print('graph has nodes: ', len(graph))
print('one hop graph has edges: ', len(graph.edges()))
print('two hop graph has edges: ', len(twohops_graph.edges()))
assert (len(graph) == len(threehops_graph))
print('three hop graph has edges:', len(threehops_graph.edges()))
print('four hop graph has edges:', len(fourhops_graph.edges()))
nodes_num = len(graph.nodes())
onehops_dict= {}
twohops_dict = {}
threehops_dict = {}
fourhops_dict = {}
degree_dict_prob = graph.degree()
degree_list_prob = []
all_degrees = sum(degree_dict_prob.values())
for (k,v) in degree_dict_prob.items():
val = v / all_degrees
degree_dict_prob[k] = val
degree_list_prob.append(val)
for i in range(len(graph)):
onehops_dict[i] = graph.neighbors(i)
for i in range(len(twohops_graph)):
twohops_dict[i] = twohops_graph.neighbors(i)
for i in range(len(threehops_graph)):
threehops_dict[i] = threehops_graph.neighbors(i)
#with open("{}/ind.{}.{}.{}".format(data_folder, dataset_str, str(cmd_args.n_hops), 'khops_graph'), 'wb') as f:
#pkl.dump(khops_dict, f)
for i in range(len(fourhops_graph)):
fourhops_dict[i] = fourhops_graph.neighbors(i)
return onehops_dict, twohops_dict, threehops_dict, fourhops_dict, degree_list_prob
def test_graph_power():
# wikipedia example for graph power
G = nx.cycle_graph(7)
G.add_edge(6, 7)
G.add_edge(7, 8)
G.add_edge(8, 9)
G.add_edge(9, 2)
H = nx.power(G, 2)
assert_edges_equal(list(H.edges()),
[(0, 1), (0, 2), (0, 5), (0, 6), (0, 7), (1, 9), (1, 2),
(1, 3), (1, 6), (2, 3), (2, 4), (2, 8), (2, 9), (3, 4),
(3, 5), (3, 9), (4, 5), (4, 6), (5, 6), (5, 7), (6, 7),
(6, 8), (7, 8), (7, 9), (8, 9)])
def test_graph_power():
# wikipedia example for graph power
G = nx.cycle_graph(7)
G.add_edge(6, 7)
G.add_edge(7, 8)
G.add_edge(8, 9)
G.add_edge(9, 2)
H = nx.power(G, 2)
assert_equal(list(H.edges()), [(0, 1), (0, 2), (0, 5), (0, 6), (0, 7), (1, 9),
(1, 2), (1, 3), (1, 6), (2, 3), (2, 4), (2, 8),
(2, 9), (3, 4), (3, 5), (3, 9), (4, 5), (4, 6),
(5, 6), (5, 7), (6, 7), (6, 8), (7, 8), (7, 9),
(8, 9)])
assert_raises(ValueError, nx.power, G, -1)
def test_graph_power_negative():
nx.power(nx.Graph(), -1)
def test_graph_power_raises():
nx.power(nx.MultiDiGraph(), 2)
def test_graph_power_raises():
nx.power(nx.MultiDiGraph(), 2)
def test_graph_power_negative():
with pytest.raises(ValueError):
nx.power(nx.Graph(), -1)
def test_graph_power_raises():
with pytest.raises(nx.NetworkXNotImplemented):
nx.power(nx.MultiDiGraph(), 2)
def powerGraph(self, p):
self.main_graph = nx.power(self.main_graph, p)
def test_graph_power_negative():
nx.power(nx.Graph(), -1)
def wl2_encode(
g,
dim_node_features=None, dim_edge_features=None,
num_node_labels=None, num_edge_labels=None,
neighborhood=1, with_indices=False, compact=False):
"""
Takes a graph with node and edge features and converts it
into a edge + row/col ref list for sparse WL2 implementations.
"""
g_p = nx.power(g, neighborhood) if neighborhood > 1 else g
if dim_node_features is None:
dim_node_features = 0
if dim_edge_features is None:
dim_edge_features = 0
if num_node_labels is None:
dim_edge_features = 0
if num_edge_labels is None:
num_edge_labels = 0
dim_node_wl2 = dim_node_features + num_node_labels
dim_edge_wl2 = dim_edge_features + num_edge_labels
n_zero_f = np.zeros(dim_node_features)
n_zero_l = np.zeros(num_node_labels)
e_zero_f = np.zeros(dim_edge_features)
e_zero_l = np.zeros(num_edge_labels)
I_n = np.eye(num_node_labels)
I_e = np.eye(num_edge_labels)
for node, data in g.nodes(data=True):
g_p.add_edge(node, node)
g.add_edge(
node, node,
features=data.get("features", n_zero_f),
label=data.get("label"))
x = []
ref_a = []
ref_b = []
backref = []
max_ref_dim = 0
e_ids = {}
for i, edge in enumerate(g_p.edges):
e_ids[edge] = i
for i, edge in enumerate(g_p.edges):
a, b = edge
in_g = g.has_edge(a, b)
if not in_g:
f = e_zero_f
lab = e_zero_l
elif (
(a != b and dim_edge_wl2 == 0)
or (a == b and dim_node_wl2 == 0)):
f = []
lab = []
else:
d = g.get_edge_data(a, b)
f = d.get("features", e_zero_f)
if a == b and num_node_labels > 0:
lab = I_n[d["label"] - 1]
elif a != b and num_edge_labels > 0:
lab = I_e[d["label"] - 1]
else:
lab = []
nbs = (
([a] if a == b else [a, b])
+ list(nx.common_neighbors(g_p, a, b)))
n_a = [eid_lookup(e_ids, a, k) for k in nbs]
n_b = [eid_lookup(e_ids, b, k) for k in nbs]
nbs_count = len(nbs)
x.append(np.concatenate(
([1, 0, 0], lab, f, e_zero_l, e_zero_f) if a == b else
([0], [1, 0] if in_g else [0, 1], n_zero_l, n_zero_f, lab, f)))
if compact:
ref_a += n_a
ref_b += n_b
backref += [e_ids[edge]] * nbs_count
else:
if nbs_count > max_ref_dim:
max_ref_dim = nbs_count
ref_a.append(np.array(n_a))
ref_b.append(np.array(n_b))
n = g.order()
res = (
np.array(x),
np.array(ref_a), np.array(ref_b),
np.array(backref if compact else max_ref_dim),
n)
if with_indices:
res += (list(g_p.edges),)
return res