I just found out the following (using gt 2.29):


If I create a GraphView of g and store it in g,


    g = gt.extract_largest_component(g)


infer an SBM,


    state = gt.minimize_nested_blockmodel_dl(g)


and try to draw it,


    state.draw()


then I get the "RuntimeError: Invalid hierarchical tree: No path from source to target."


But if I prune the graph,


     g = gt.extract_largest_component(g, prune=True)


then everything's fine.


Hope this documentation is helpful.


Haiko


Von: graph-tool <graph-tool-bounces@skewed.de> im Auftrag von Tiago de Paula Peixoto <tiago@skewed.de>
Gesendet: Dienstag, 31. Oktober 2017 17:08:52
An: graph-tool@skewed.de
Betreff: Re: [graph-tool] Nested Block State hierarchy level after mcmc_equilibrate
 
On 31.10.2017 15:33, ilyco wrote:
> There are many empty branches and when I try to plot it with empty_branches
> = False, I get an error stating it is not a tree.
> RuntimeError: Invalid hierarchical tree: No path from source to target.

Which version are you using?

Please provide a minimal and self-contained example that shows the problem.

Best,
Tiago

--
Tiago de Paula Peixoto <tiago@skewed.de>