Hi I tried to plot the community structure by using label propagation
algorithm but got some errors. First, the value of modularity is none.
Second, it produced IndexError: color index must be non-negative.
My idea:
1. Read from a csv file with the format of weighted adjacency matrix
2. Convert the data into a graph object in igraph
3. Applying label propagation algorithm to find communities
4. Plot the result
My code is following:
from igraph import *
from numpy import genfromtxt
import numpy as np
my_data = genfromtxt('CBSNews.csv', delimiter=',')
conn_indices = np.where(my_data)
weights = my_data[conn_indices]
edges = zip(*conn_indices)
g = Graph(edges=edges, directed=False)
g.es['weight'] = weights
result = g.community_label_propagation()
print result.modularity
plot(result)
The erros message is:
Traceback (most recent call last):
File "plot_community.py", line 25, in <module>
plot(result)
File "/usr/local/lib/python2.7/site-packages/igraph/drawing/__init__.py",
line 475, in plot
result.show()
File "/usr/local/lib/python2.7/site-packages/igraph/drawing/__init__.py",
line 316, in show
self.redraw(ctx)
File "/usr/local/lib/python2.7/site-packages/igraph/drawing/__init__.py",
line 269, in redraw
plotter(ctx, bbox, palette, *args, **kwds)
File "/usr/local/lib/python2.7/site-packages/igraph/clustering.py", line
509, in __plot__
return self._graph.__plot__(context, bbox, palette, *args, **kwds)
File "/usr/local/lib/python2.7/site-packages/igraph/__init__.py", line
3152, in __plot__
drawer.draw(self, palette, *args, **kwds)
File "/usr/local/lib/python2.7/site-packages/igraph/drawing/graph.py",
line 259, in draw
vertex_builder = vertex_drawer.VisualVertexBuilder(graph.vs, kwds)
File
"/usr/local/lib/python2.7/site-packages/igraph/drawing/metamagic.py", line
222, in __init__
values = self._collect_attributes(attr_spec)
File
"/usr/local/lib/python2.7/site-packages/igraph/drawing/metamagic.py", line
340, in _collect_attributes
result = [transform(x) for x in result]
File "/usr/local/lib/python2.7/site-packages/igraph/drawing/colors.py",
line 93, in get
raise IndexError("color index must be non-negative")
I do appreciate it if anyone can help.
Best,
Zhige
_______________________________________________
igraph-help mailing list
[email protected]
https://lists.nongnu.org/mailman/listinfo/igraph-help
