def get_fig(self, genes, e_color):
fixed_pair = [(self.fixed_path[i], self.fixed_path[i+1])
for i in range(len(self.fixed_path) - 1)]
for gene in genes:
gene_pair = [(gene[i], gene[i+1]) for i in range(len(gene) - 1)]
for layer_num, (pair, fixed) in enumerate(zip(gene_pair, fixed_pair)):
for first_num in pair[0]:
for second_num in pair[1]:
first_node = self.node_ids[(layer_num, first_num)]
second_node = self.node_ids[(layer_num + 1, second_num)]
if self.graph.has_edge(first_node, second_node):
self.node_upsize(first_node)
self.node_upsize(second_node)
weight = self.graph.get_edge_data(first_node, second_node)['weight']
weight += self.edge_weight_add
self.graph.add_edge(first_node, second_node, color = e_color, weight = weight)
else:
self.graph.add_edge(first_node, second_node, color = e_color, weight = self.init_edge_weight)
for fixed in fixed_pair:
for f_1 in fixed[0]:
for f_2 in fixed[1]:
if (not f_1 == None) and (not f_2 == None):
self.graph.add_edge(f_1, f_2, color = self.fixed_color, weight = self.fixed_weight)
nodes = self.graph.nodes(data = True)
node_color = 'g'
node_size = [node[1]['size'] for node in nodes]
node_shape = 's'
edges = self.graph.edges()
edge_color = [self.graph[u][v]['color'] for u,v in edges]
weights = [self.graph[u][v]['weight'] for u,v in edges]
nx.draw_networkx_nodes(self.graph, nodes = nodes, pos=nx.get_node_attributes(self.graph,'Position'), node_color = node_color, node_size = node_size, node_shape = node_shape)
nx.draw_networkx_edges(self.graph, edges = edges, pos=nx.get_node_attributes(self.graph,'Position'), edge_color = edge_color, width = weights)
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