networkx DiGraph Attribute Error self._succ

by

I believe your problem is similar to that in AttributeError: ‘DiGraph’ object has no attribute ‘_node’

The issue there is that the graph being investigated was created in networkx 1.x and then pickled. The graph then has the attributes that a networkx 1.x object has. I believe this happened for you as well.

You’ve now opened it and you’re applying tools from networkx 2.x to that graph. But those tools assume that it’s a networkx 2.x DiGraph, with all the attributes expected in a 2.x DiGraph. In particular it expects _succ to be defined for a node, which a 1.x DiGraph does not have.

So here are two approaches that I believe will work:

Short term solution
Remove networkx 2.x and replace with networkx 1.11.

This is not optimal because networkx 2.x is more powerful. Also code that has been written to work in both 2.x and 1.x (following the migration guide you mentioned) will be less efficient in 1.x (for example there will be places where the 1.x code is using lists and the 2.x code is using generators).

Long term solution
Convert the 1.x graph into a 2.x graph (I can’t test easily as I don’t have 1.x on my computer at the moment – If anyone tries this, please leave a comment saying whether this works and whether your network was weighted):

#you need commands here to load the 1.x graph G
#
import networkx as nx   #networkx 2.0
H = nx.DiGraph() #if it's a DiGraph()
#H=nx.Graph() #if it's a typical networkx Graph().

H.add_nodes_from(G.nodes(data=True))
H.add_edges_from(G.edges(data=True))

The data=True is used to make sure that any edge/node weights are preserved. H is now a networkx 2.x DiGraph, with the edges and nodes having whatever attributes G had. The networkx 2.x commands should work on it.

Bonus longer term solution
Contact the other researcher and warn him/her that the code example is now out of date.

More Related Contents:

  1. how to draw directed graphs using networkx in python?
  2. Why Python 3.6.1 throws AttributeError: module ‘enum’ has no attribute ‘IntFlag’?
  3. AttributeError: ‘module’ object has no attribute
  4. Why am I getting AttributeError: Object has no attribute? [closed]
  5. AttributeError: module ‘time’ has no attribute ‘clock’ in Python 3.8
  6. AttributeError: ‘Tensor’ object has no attribute ‘numpy’
  7. Combine lists with common elements
  8. Plotting networkx graph with node labels defaulting to node name
  9. Can one get hierarchical graphs from networkx with python 3?
  10. Why is Tkinter widget stored as None? (AttributeError: ‘NoneType’ object …)(TypeError: ‘NoneType’ object …) [duplicate]
  11. networkx – change color/width according to edge attributes – inconsistent result
  12. What is causing this AttributeError?
  13. Is there a way to guarantee hierarchical output from NetworkX?
  14. Drawing multiple edges between two nodes with networkx
  15. Networkx: Overlapping edges when visualizing MultiGraph
  16. Plotting directed graphs in Python in a way that show all edges separately
  17. Co-occurrence matrix from nested list of words
  18. Bipartite graph in NetworkX
  19. What causes `None` results from BeautifulSoup functions? How can I avoid “AttributeError: ‘NoneType’ object has no attribute…” with BeautifulSoup?
  20. networkx add_node with specific position
  21. how to draw communities with networkx
  22. Networkx : Convert multigraph into simple graph with weighted edges
  23. Path between two nodes
  24. pylab/networkx; no node labels displayed after update
  25. Hypergraph with networkx
  26. Why do I get “‘str’ object has no attribute ‘read'” when trying to use `json.load` on a string? [duplicate]
  27. Plot NetworkX Graph from Adjacency Matrix in CSV file
  28. After `x = x.y()`, why did `x` become `None` instead of being modified (possibly causing “AttributeError: ‘NoneType’ object has no attribute”)?
  29. DataFrame object has no attribute append
  30. (Python) ValueError: Program dot not found in path

Leave a Comment