def initialize_arrows_backwards(self):
for (node_1, node_2) in self.graph.edges():
if self.knowledge is not None and not self.knowledge.no_edge_required(
node_1, node_2):
continue
self.clear_arrow(node_1, node_2)
self.clear_arrow(node_2, node_1)
self.calculate_arrows_backward(node_1, node_2)
self.stored_neighbors[node_1] = graph_util.neighbors(
self.graph, node_1)
self.stored_neighbors[node_2] = graph_util.neighbors(
self.graph, node_2)
def bes(self):
"""BES removes edges from the graph generated by FGES, as added edges can now have negative bump in light
of the additions to the graph after those edges were added."""
while len(self.sorted_arrows) > 0:
if self.checkpoint_frequency > 0 and (
time.time() -
self.last_checkpoint) > self.checkpoint_frequency:
self.create_checkpoint()
self.last_checkpoint = time.time()
arrow = self.sorted_arrows.pop(0)
x = arrow.a
y = arrow.b
if (not (arrow.na_y_x == graph_util.get_na_y_x(self.graph, x, y))) or \
(not graph_util.adjacent(self.graph, x, y)) or (graph_util.has_dir_edge(self.graph, y, x)):
continue
if not self.valid_delete(x, y, arrow.h_or_t, arrow.na_y_x):
continue
H = arrow.h_or_t
bump = arrow.bump
self.delete(x, y, H)
meek_rules = MeekRules(knowledge=self.knowledge)
meek_rules.orient_implied_subset(self.graph, set([x, y]))
self.total_score += bump
self.clear_arrow(x, y)
if self.verbose:
print("BES: Removed arrow " + str(x) + " -> " + str(y) +
" with bump -" + str(bump))
visited = self.reapply_orientation(x, y, H)
to_process = set()
for node in visited:
neighbors = graph_util.neighbors(self.graph, node)
str_neighbors = self.stored_neighbors[node]
if str_neighbors != neighbors:
to_process.update([node])
to_process.add(x)
to_process.add(y)
to_process.update(graph_util.get_common_adjacents(
self.graph, x, y))
# TODO: Store graph
self.reevaluate_backward(to_process)
def reevaluate_backward(self, to_process):
for node in to_process:
self.stored_neighbors[node] = graph_util.neighbors(
self.graph, node)
adjacent_nodes = graph_util.adjacent_nodes(self.graph, node)
for adj_node in adjacent_nodes:
if graph_util.has_dir_edge(self.graph, adj_node, node):
self.clear_arrow(adj_node, node)
self.clear_arrow(node, adj_node)
self.calculate_arrows_backward(adj_node, node)
elif graph_util.has_undir_edge(self.graph, adj_node, node):
self.clear_arrow(adj_node, node)
self.clear_arrow(node, adj_node)
self.calculate_arrows_backward(adj_node, node)
self.calculate_arrows_backward(node, adj_node)
def calculate_arrows_forward(self, a, b):
# print("Calculate Arrows Forward: " + str(a) + " " + str(b))
if b not in self.effect_edges_graph[a] and self.mode == "heuristic":
print("Returning early...")
return
if self.knowledge is not None and self.knowledge.is_forbidden(a, b):
return
# print("Get neighbors for " + str(b) + " returns " + str(graph_util.neighbors(self.graph, b)))
self.stored_neighbors[b] = graph_util.neighbors(self.graph, b)
na_y_x = graph_util.get_na_y_x(self.graph, a, b)
_na_y_x = list(na_y_x)
if not graph_util.is_clique(self.graph, na_y_x):
return
t_neighbors = list(graph_util.get_t_neighbors(self.graph, a, b))
# print("tneighbors for " + str(a) + ", " + str(b) + " returns " + str(t_neighbors))
len_T = len(t_neighbors)
def outer_loop():
previous_cliques = set() # set of sets of nodes
previous_cliques.add(frozenset())
new_cliques = set() # set of sets of nodes
for i in range(len_T + 1):
choices = itertools.combinations(range(len_T), i)
choices2 = itertools.combinations(range(len_T), i)
# print("All choices: ", list(choices2), " TNeighbors: ", t_neighbors)
for choice in choices:
T = frozenset([t_neighbors[k] for k in choice])
# print("Choice:", T)
union = set(na_y_x)
union.update(T)
found_a_previous_clique = False
for clique in previous_cliques:
# basically if clique is a subset of union
if union >= clique:
found_a_previous_clique = True
break
if not found_a_previous_clique:
# Break out of the outer for loop
return
if not graph_util.is_clique(self.graph, union):
continue
new_cliques.add(frozenset(union))
bump = self.insert_eval(a, b, T, na_y_x)
# print("Evaluated arrow " + str(a) + " -> " + str(b) + " with T: " + str(T) + " and bump: " + str(bump));
if bump > 0:
self.add_arrow(a, b, na_y_x, T, bump)
previous_cliques = new_cliques
new_cliques = set()
outer_loop()
def fes(self):
"""The basic workflow of FGES is to first consider add all edges with positive bump, as defined
by the SEMBicScore, to a sorted list (sorted by bump).
Edges are popped off this list and added to the graph, after which point the Meek rules are utilized to
orient edges in the graph that can be oriented. Then, all relevant bumps are recomputed and
the list is resorted. This process is repeated until there remain no edges to add with positive bump."""
# print("Running FES.`.")
# print("Length of sorted arrows", len(self.sorted_arrows))
# print(self.arrow_dict)
while len(self.sorted_arrows) > 0:
if self.checkpoint_frequency > 0 and (
time.time() -
self.last_checkpoint) > self.checkpoint_frequency:
self.create_checkpoint()
self.last_checkpoint = time.time()
max_bump_arrow = self.sorted_arrows.pop(
0) # Pops the highest bump edge off the sorted list
x = max_bump_arrow.a
y = max_bump_arrow.b
# print("Popped arrow: " + str(x) + " -> " + str(y))
if graph_util.adjacent(self.graph, x, y):
continue
na_y_x = graph_util.get_na_y_x(self.graph, x, y)
# TODO: max degree checks
# print(na_y_x)
if max_bump_arrow.na_y_x != na_y_x:
continue
# print("Past crucial step")
if not graph_util.get_t_neighbors(self.graph, x, y).issuperset(
max_bump_arrow.h_or_t):
continue
if not self.valid_insert(x, y, max_bump_arrow.h_or_t, na_y_x):
# print("Not valid insert")
continue
T = max_bump_arrow.h_or_t
bump = max_bump_arrow.bump
# TODO: Insert should return a bool that we check here
inserted = self.insert(
x, y, T, bump) # Insert highest bump edge into the graph
if not inserted:
continue
self.total_score += bump
# print("Edge set before reapplying orientation: " + str(self.graph.edges()))
visited_nodes = self.reapply_orientation(
x, y, None) # Orient edges appropriately following insertion
# print("Edge set after reapplying orientation: " + str(self.graph.edges()))
to_process = set({})
# check whether the (undirected) neighbors of each node in
# visited_nodes changed compared to stored neighbors
for node in visited_nodes:
# gets undirected neighbors
new_neighbors = graph_util.neighbors(self.graph, node)
stored_neighbors = self.stored_neighbors.get(node)
if stored_neighbors != new_neighbors:
to_process.add(node) # Reevaluate neighbor nodes
to_process.add(x) # Reevaluate edges relating to node x
to_process.add(y) # Reevaluate edges relating to node y
self.reevaluate_forward(to_process,
max_bump_arrow) # Do actual reevaluation