Problem with node attributes (specifically `bipartite')

[benmaier]

Problem with node attributes (specifically `bipartite')

[benmaier]

so the error only occurs after the styling process?

[floklimm]

It does occur immediately when executing

wulf.visualize(tempToPlot)  

(and it doesn't throw an error but just an empty canvas, as if you would have input an empty graph)

[benmaier]

weird, it works for me. I called

import netwulf as wulf
_, __, G = wulf.load("./matNetwork_error.txt")
wulf.visualize(G)

and I get the following result:

Which version of netwulf do you have installed? You can find out like this:

print(wulf.__version__)

[benmaier]

the current version is 0.1.4. In case you're not on the current version you can update it like this:

pip install --upgrade netwulf

[floklimm]

I am also on 0.1.4

I will try to create a minimal working example and then report back.

[benmaier]

when you said "(and it doesn't throw an error", does that mean you have checked the javascript console for error messages?

[floklimm]

Please find below a minimal working example:

## import things
import networkx as nx
import netwulf as wulf

## construct a small bipartite network
B = nx.Graph()
nodeSet0 = [1, 2, 3, 4]
B.add_nodes_from(nodeSet0, bipartite=0)
B.add_nodes_from(['a', 'b', 'c'], bipartite=1)
B.add_edges_from([(1, 'a'), (1, 'b'), (2, 'b'), (2, 'c'), (3, 'c'), (4, 'a')])

G=nx.projected_graph(B,nodeSet0)

## visualise the  with netwulf (fails)
wulf.visualize(G)

## removing the `bipartite' node attribute 
copyOfGraph = G.copy()
for node in copyOfGraph:
   del copyOfGraph.node[node]['bipartite']

## Now it works
wulf.visualize(copyOfGraph)

The error message in the javascript console when it fails is
Uncaught TypeError: Cannot read property 'constructor' of undefined
at Xt (sweetalert2.all.min.js:1)
at restart_if_valid_JSON (vis.js:541)
at vis.js:437
at Object. (d3.v4.min.js:7)
at _.call (d3.v4.min.js:4)
at XMLHttpRequest.e (d3.v4.min.js:7)

As removing the node attributes fixes the problem it is not an urgent issue but I thought it should be documented somewhere in case other people run into the same problem.

Versions:
python 3.6.8
networkx 2.2
wulf 0.1.4

I am running it in an Anaconda Jupiter Notebook on a Mac.

[benmaier]

which browser?

[benmaier]

very weird, your code works on my machine for both python 3.6 and python 3.7 as well as both Chrome and Safari

[benmaier]

(thanks for raising the issue though, I heard from several people that they had problems, so this definitely helps)

[floklimm]

I just checked and the problem seems to occur only with Chrome. Firefox and Safari work without any problem!

[benmaier]

weird