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Error during trajectory inference #2

Open kverstae opened 5 years ago

kverstae commented 5 years ago 

  File "/code/run.py", line 52, in <module>
    mute = True
  File "/pCreode/pcreode/functions.py", line 698, in pCreode
    hi_pl, hi_pl_ind = hierarchical_placement( dens_knn, cen_ind)
  File "/pCreode/pcreode/functions.py", line 284, in hierarchical_placement
    run_dist = get_graph_distance( end_ind, to_ind, graph)
  File "/pCreode/pcreode/functions.py", line 120, in get_graph_distance
    d[ii,:] = graph.shortest_paths( from_ind[ii], to_ind, weights="weight")[0]
igraph._igraph.InternalError: Error at structural_properties.c:5200: cannot run Bellman-Ford algorithm, Negative loop detected while calculating shortest paths```
herrinca commented 5 years ago

Thanks for letting me know.... Too much trouble to get a copy of the data set that flagged this error? Would like to try and reproduce.