July 2022 - graph-tool - archives.skewed.de

bipartite minimize_nested_blockmodel_dl() error: cannot move vertex across clabel barriers
by Siwei Zhang 25 Jul '22

25 Jul '22

Hi Dr. Peixoto, I am using graph-tool version 2.45 and I have two questions. 1. I am trying to reproduce the script in the document 2. g = gt.collection.data["celegansneural"] state = gt.minimize_nested_blockmodel_dl(g, state_args=dict(overlap=True)) and have the error: /usr/lib/python3/dist-packages/graph_tool/inference/blockmodel.py:390: UserWarning: unrecognized keyword arguments: ['overlap'] warnings.warn("unrecognized keyword arguments: " + It seems the argument of "overlap" is removed. 2. Regardless of the question1, I am trying to do a bipartite version stochastic block model and I define "clabel" to constraint labels on the vertices so that vertices with different label values will not be clustered in the same group. But I always have the error of "ValueError: cannot move vertex across clabel barriers". The below is the code: node_types = g.vp['kind'] node_types.get_array() Output: PropertyArray([1, 1, 1, ..., 2, 2, 2], dtype=int32) state = gt.minimize_nested_blockmodel_dl( g, state_args=dict(clabel=node_types,pclabel=node_types,deg_corr=True), multilevel_mcmc_args = dict(niter=niter,beta=beta)) Could you please help me with these questions? Thanks! Best, Siwei

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minimize_nested_blockmodel_dl got an unexpected keyword argument 'multilevel_mcmc_args'
by Siwei Zhang 13 Jul '22

13 Jul '22

Hello, I have a question about minimize_nested_blockmodel_dl(). The below is my code: state_args = {'clabel': node_types, 'pclabel': node_types} multilevel_mcmc_args = {'niter': niter, 'beta': beta} state = gt.minimize_nested_blockmodel_dl( g, deg_corr = True, overlap = False, state_args = state_args, multilevel_mcmc_args = multilevel_mcmc_args ) And I encountered an error that "minimize_nested_blockmodel_dl got an unexpected keyword argument 'multilevel_mcmc_args'". I removed "multilevel_mcmc_args" and it works. And I also tried example "minimize_blockmodel_dl(G, multilevel_mcmc_args=dict(B_min=4, B_max=4))" in https://git.skewed.de/count0/graph-tool/-/issues/725 and I encountered the same error. I took a look of the source code of graph-tool and I did not find where is the problem. Could you please help me about it? Thanks! Best, Siwei

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Differential blocks between graphs
by Davide Cittaro 05 Jul '22

05 Jul '22

Hello all, I was wondering if (and possibly how) graph-tool could be used to identify differential blocks across given graphs. More specifically, if two graph have the same nodes, is it possible to identify the sets of partitions that are blocks in one graph but not the other? Would it suffice to identify partitions in both graphs and then check for the differences? Thanks d

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