Pandas Dataframe & NetworkX - NetworkXError: random_state_index is incorrect - linked to my previous question

Question

Here is the link to my previous question : Pandas Dataframe - running through two columns 'Father' and 'Son' to rebuild end-to-end links step by step

The fact is that what I want to do with my dataframes in the question above would be much easier going through a networkx MultiDiGraph building.

But I already tried to work with networkx, and could not use it because I always have this error when I try to draw my graphs :

df_ = pd.DataFrame({
    'key' : ['E', 'E', 'E', 'E', 'K', 'K', 'K', 'K', 'K'],
    'father' : ['A', 'D', 'C', 'B', 'F', 'G', 'H', 'I', 'J'],
    'son' : ['B', 'E', 'D', 'C', 'G', 'H', 'I', 'J', 'K']
})
df_

G = nx.from_pandas_edgelist(df_, source='father', target='son',
                            create_using=nx.MultiDiGraph)
nx.draw(G)

---------------------------------------------------------------------------
IndexError                                Traceback (most recent call last)
~\Anaconda3\lib\site-packages\networkx\utils\decorators.py in _random_state(func, *args, **kwargs)
    395         try:
--> 396             random_state_arg = args[random_state_index]
    397         except TypeError as e:

IndexError: tuple index out of range

The above exception was the direct cause of the following exception:

NetworkXError                             Traceback (most recent call last)
<ipython-input-13-4a39fa27cfaf> in <module>
      2                                      edge_attr=True,
      3                                      create_using=nx.MultiDiGraph)
----> 4 nx.draw(G)

~\Anaconda3\lib\site-packages\networkx\drawing\nx_pylab.py in draw(G, pos, ax, **kwds)
    121         kwds["with_labels"] = "labels" in kwds
    122 
--> 123     draw_networkx(G, pos=pos, ax=ax, **kwds)
    124     ax.set_axis_off()
    125     plt.draw_if_interactive()

~\Anaconda3\lib\site-packages\networkx\drawing\nx_pylab.py in draw_networkx(G, pos, arrows, with_labels, **kwds)
    331 
    332     if pos is None:
--> 333         pos = nx.drawing.spring_layout(G)  # default to spring layout
    334 
    335     draw_networkx_nodes(G, pos, **node_kwds)

~\Anaconda3\lib\site-packages\decorator.py in fun(*args, **kw)
    229             if not kwsyntax:
    230                 args, kw = fix(args, kw, sig)
--> 231             return caller(func, *(extras + args), **kw)
    232     fun.__name__ = func.__name__
    233     fun.__doc__ = func.__doc__

~\Anaconda3\lib\site-packages\networkx\utils\decorators.py in _random_state(func, *args, **kwargs)
    398             raise nx.NetworkXError("random_state_index must be an integer") from e
    399         except IndexError as e:
--> 400             raise nx.NetworkXError("random_state_index is incorrect") from e
    401 
    402         # Create a numpy.random.RandomState instance

NetworkXError: random_state_index is incorrect

I want to extract the graph back to a dataframe that would look like this :

df_2 = pd.DataFrame({
    'key' : ['E', 'K'],
    'step_0' : ['A', 'F'],
    'step_1' : ['B', 'G'],
    'step_2' : ['C', 'H'],
    'step_3' : ['D', 'I'],
    'step_4' : ['E', 'J'],
    'step_5' : [np.NaN, 'K']
})
df_2

I know I could do it with networkx and it was also advised in comment of the linked question. But I don't understand how to get rid of the nx error.

My environment is last version of anaconda, with Jupyter Notebook and Python 3.8.8, networkx 2.5, Decorator 5.0.6, Matplotlib 3.3.4. I precise it because last versions of decorator should have this problem fixed according to this question.

score 0 · Accepted Answer · answered Jan 19 '22 at 14:37

It was I think because of Decorator 5.0.6, so I needed to upgrade anaconda to last version where it contains Decorator 5.1.0, which doesn't cause this problem anymore.

To complete about the reference to the previous question, I had posted, I had to install Graphviz and Pygraphviz because it includes better plotting for the graphs. This was also not easy because it's not compatible at first with Anaconda environment, and the pygraphviz documentation recommands not to use it with Anaconda.

However, I asked a question about Graphviz Anaconda installation of those libraries that causes difficulty to a bunch of people. In this question is linked a tutorial for Graphviz installation on Anaconda, the question itself shows how to install Pygraphviz on Anaconda.

Pandas Dataframe & NetworkX - NetworkXError: random_state_index is incorrect - linked to my previous question

1 Answers1