def drawActivityResourceGraph_advanced(self, ActivityRscMatrix, weight_threshold, directed, splitted):
rows, cols = np.where(ActivityRscMatrix > weight_threshold)
weights = list();
for x in range(len(rows)):
weights.append(ActivityRscMatrix[rows[x]][cols[x]])
got_net = Network(height="750px", width="100%", bgcolor="black", font_color="#f57b2b", directed= directed)
# set the physics layout of the network
got_net.barnes_hut()
edge_data = zip(rows, cols, weights)
counter = 1
for e in edge_data:
src = self.activityList[e[0]] # convert ids to labels
dst = self.resourceList[e[1]]
w = e[2]
# I have to add some options here, there is no parameter
highlight = {'border': "#3de975", 'background': "#41e9df"}
if(splitted):
got_net.add_node(src, src, title=src, labelHighlightBold=True, color={'highlight': highlight},shape='square')
got_net.add_node(dst+ "__" +str(counter) , dst , title=dst , labelHighlightBold=True, color={'border': "#dd4b39", 'background': "#dd4b39", 'highlight': highlight})
got_net.add_edge(src, dst+ "__" +str(counter), value=w, title=w)
counter +=1
else:
got_net.add_node(src, src, title=src, labelHighlightBold=True, color={'highlight': highlight},shape='square')
got_net.add_node(dst , dst, title=dst , labelHighlightBold=True, color={'border': "#dd4b39", 'background': "#dd4b39", 'highlight': highlight})
got_net.add_edge(src, dst , value=w, title=w)
neighbor_map = got_net.get_adj_list()
dict = got_net.get_edges()
self.getResourceList()
# add neighbor data to node hover data
for node in got_net.nodes:
counter = 0
if(directed):
node["title"] = "<h3>" + node["title"] + " Output Links: </h3>"
else:
node["title"] = "<h3>" + node["title"] + " Links: </h3>"
for neighbor in neighbor_map[node["id"]]:
if(counter % 10 == 0):
node["title"] += "<br>::: " + neighbor
else:
node["title"] += " ::: " + neighbor
node["value"] = len(neighbor_map[node["id"]])
counter += 1
got_net.show_buttons(filter_=['nodes', 'edges', 'physics'])
got_net.show_buttons(filter_=['physics'])
got_net.show("PMSocial.html")
def drawRscRscGraph_advanced(self, RscRscMatrix, weight_threshold, directed, encryption):
rows, cols = np.where(RscRscMatrix > weight_threshold)
weights = list();
for x in range(len(rows)):
weights.append(RscRscMatrix[rows[x]][cols[x]])
#got_net = Network(height="750px", width="100%", bgcolor="white", font_color="#3de975", directed=directed)
got_net = Network(height="750px", width="100%", bgcolor="white", font_color="black", directed=directed)
##f57b2b
# set the physics layout of the network
got_net.barnes_hut()
edge_data = zip(rows, cols, weights)
for e in edge_data:
src = self.resourceList[e[0]] # convert ids to labels
dst = self.resourceList[e[1]]
w = e[2]
if(encryption):
src = Utilities.AES_ECB_Encrypt(self,src.encode('utf-8'))
dst = Utilities.AES_ECB_Encrypt(self,dst.encode('utf-8'))
# I have to add some options here, there is no parameter
highlight = {'border': "#3de975", 'background': "#41e9df"}
#color = {'border': "#000000", 'background': "#123456"}
got_net.add_node(src, src, title=src, labelHighlightBold=True, color={'highlight': highlight})
got_net.add_node(dst, dst, title=dst , labelHighlightBold=True, color={'highlight': highlight})
got_net.add_edge(src, dst, value=w, title=w)
neighbor_map = got_net.get_adj_list()
dict = got_net.get_edges()
self.getResourceList()
# add neighbor data to node hover data
for node in got_net.nodes:
counter = 0
if(directed):
node["title"] = "<h3>" + node["title"] + " Output Links: </h3>"
else:
node["title"] = "<h3>" + node["title"] + " Links: </h3>"
for neighbor in neighbor_map[node["id"]]:
if(counter % 10 == 0):
node["title"] += "<br>::: " + neighbor
else:
node["title"] += " ::: " + neighbor
node["value"] = len(neighbor_map[node["id"]])
counter += 1
got_net.show_buttons(filter_=['nodes', 'edges', 'physics'])
got_net.show_buttons(filter_=['physics'])
got_net.show("PMSocial.html")
def apply(metric_values, parameters=None):
"""
Perform SNA visualization starting from the Matrix Container object
and the Resource-Resource matrix
Parameters
-------------
metric_values
Value of the metrics
parameters
Possible parameters of the algorithm, including:
- Parameters.WEIGHT_THRESHOLD -> the weight threshold to use in displaying the graph
Returns
-------------
temp_file_name
Name of a temporary file where the visualization is placed
"""
from pyvis.network import Network
if parameters is None:
parameters = {}
weight_threshold = exec_utils.get_param_value(Parameters.WEIGHT_THRESHOLD, parameters, 0)
directed = metric_values[2]
temp_file_name = get_temp_file_name("html")
rows, cols = np.where(metric_values[0] > weight_threshold)
weights = list()
for x in range(len(rows)):
weights.append(metric_values[0][rows[x]][cols[x]])
got_net = Network(height="750px", width="100%", bgcolor="black", font_color="#3de975", directed=directed)
# set the physics layout of the network
got_net.barnes_hut()
edge_data = zip(rows, cols, weights)
for e in edge_data:
src = metric_values[1][e[0]] # convert ids to labels
dst = metric_values[1][e[1]]
w = e[2]
# I have to add some options here, there is no parameter
highlight = {'border': "#3de975", 'background': "#41e9df"}
# color = {'border': "#000000", 'background': "#123456"}
got_net.add_node(src, src, title=src, labelHighlightBold=True, color={'highlight': highlight})
got_net.add_node(dst, dst, title=dst, labelHighlightBold=True, color={'highlight': highlight})
got_net.add_edge(src, dst, value=w, title=w)
neighbor_map = got_net.get_adj_list()
dict = got_net.get_edges()
# add neighbor data to node hover data
for node in got_net.nodes:
counter = 0
if directed:
node["title"] = "<h3>" + node["title"] + " Output Links: </h3>"
else:
node["title"] = "<h3>" + node["title"] + " Links: </h3>"
for neighbor in neighbor_map[node["id"]]:
if (counter % 10 == 0):
node["title"] += "<br>::: " + neighbor
else:
node["title"] += " ::: " + neighbor
node["value"] = len(neighbor_map[node["id"]])
counter += 1
got_net.show_buttons(filter_=['nodes', 'edges', 'physics'])
got_net.write_html(temp_file_name)
return temp_file_name
tot_export = sum(list(map(isemptycell, [y3, y4, y5, y6, y7, y8, y9])))
#Creation of Edges
a.add_edge(i,
j,
physics=False,
width=tot_export // 10**10,
weight=tot_export,
title=product)
# G.add_node(i)
# G.add_node(j)
G.add_edge(i, j, weight=tot_export)
#Complete dictionary of edges
neighbor_map = a.get_edges()
#Parsing the Graph
for e_node in neighbor_map:
if outd.get(e_node['from']) == None:
outd[e_node['from']] = {e_node['to']}
else:
outd[e_node['from']].add(e_node['to'])
if ind.get(e_node['to']) == None:
ind[e_node['to']] = {e_node['from']}
else:
ind[e_node['to']].add(e_node['from'])
if outproduct.get(e_node['title']) == None:
outproduct[e_node['title']] = {}
random_weight = random.randint(1, 5)
G.add_edge(random_node_from, random_node_to, weight=random_weight)
number_of_nodes = st.slider("Number of nodes?", 0, 200, 10)
number_of_edges = st.slider("Number of edges?", 1, 400, 20)
G = nx.DiGraph() # initilize the graph bidirectional
for x in range(number_of_nodes):
generate_random_node(G)
for x in range(number_of_edges):
generate_random_edge(G)
render_demo = st.button("Render Sample Node Network")
if (render_demo):
nt = Network('500px', '500px')
nt.from_nx(G)
nt.inherit_edge_colors(False)
for ix in nt.get_edges():
ix["width"] = ix["weight"]
nt.write_html('demo.html')
print(nt)
# display(HTML('demo.html'))
HtmlFile = open("demo.html", 'r', encoding='utf-8')
source_code = HtmlFile.read()
components.html(source_code, height=700)
def configure_graph(self, graph):
net = Network("70%", "70%")
net.from_nx(graph)
net.show_buttons()
nx_edges = list(graph.edges(data="label"))
nx_edges.sort(key=lambda edge: edge[0])
py_vis_edges = net.get_edges()
py_vis_edges.sort(key=lambda edge: edge["from"])
for i, edge in enumerate(py_vis_edges):
edge["label"] = nx_edges[i][2]
if (edge["from"].startswith("Step:")
and edge["from"].startswith("Step:")):
edge["dashes"] = True
out_degrees = list(graph.out_degree())
out_degrees.sort(key=lambda tup: tup[0])
nodes = net.nodes
nodes.sort(key=lambda node: node["id"])
for i, node in enumerate(nodes):
node["shape"] = "ellipse"
if "Scenario:" in node['id']:
node["color"] = {
"background": "red",
"border": "red",
"highlight": {
"background": "rgba(255,186,96,1)"
}
}
node["level"] = 1
node["label"] = node["label"].replace("Scenario:", "")
elif out_degrees[i][1] > 0:
node["color"] = {
"background": "green",
"border": "green",
"highlight": {
"background": "rgba(255,186,96,1)"
}
}
node["level"] = 2
node["label"] = node["label"].replace("Step:", "")
elif "Step:" in node['id']:
node["color"] = {
"background": "blue",
"border": "blue",
"highlight": {
"background": "rgba(255,186,96,1)"
}
}
node["level"] = 3
node["label"] = node["label"].replace("Step:", "")
label = node["label"].split(" ")
for i, word in enumerate(label):
if i != 0 and i % 5 == 0:
label[i] = word + '\n'
node["label"] = " ".join(label)
net.show(f"{self.config.OUTPUT_DIR}/graph.html")
#Flatten list of edges tuples to list of nodes
nodes = list(itertools.chain(*nodes_bf))
#Remove duplicates from the list
nodes_list = list(dict.fromkeys(nodes))
#Add nodes & edges to graph
networkgraph.add_nodes(nodes_list,
value=[10] * len(nodes_list),
title=nodes_list,
label=nodes_list)
networkgraph.add_edges(selected_edges)
#Show to which kinases each kinase is connected
#Show to which kinases each kinase is connected
kinases_map = networkgraph.get_adj_list()
network_map = networkgraph.get_edges()
for key, value in kinases_map.items():
kinases_map[key] = ([
functools.reduce(operator.add,
((x,
str([(y["width"]) for y in network_map
if x in y["from"] and key in y["to"]
or x in y["to"] and key in y["from"]]))))
for x in value
])
nodes_numerical = {nodes_all[n]: n for n in range(len(nodes_all))}
nodes_names = dict(zip(list(nodes_numerical.values()), nodes_all))
edges_numerical = [(nodes_numerical[selected_edges[n][0]],
nodes_numerical[selected_edges[n][1]],
abs(selected_edges[n][2]))
