Error in processtrajectories

[MingBit]

Hi,

Thanks for the great cellrouter. :) I'm testing mouse bone marrow sc RNA-seq example code from this https://github.com/edroaldo/cellrouter/blob/master/stemid/StemID_BM_CellRouter.md. Everything works fine on my laptop. There is an error when I put them on the workstation (Linux).

Code:

processtrajectories(cellrouter, genes2use, path.rank=ranks[3], 
                                  num.cells = 3, neighs = 1)

Error:

 Error in igraph::induced.subgraph(graph = g, vids = unlist(igraph::neighborhood(graph = g,  : 
  Not a graph object

I found that the main issues come from 'cellrounter@networks = NULL', meaning no Cells_FlowNetwork_all_paths_subnet.gml files generated from CellRounter.Jar.

I checked the java version from my laptop and computer. laptop: java version "1.8.0_161" Java(TM) SE Runtime Environment (build 1.8.0_161-b12) Java HotSpot(TM) 64-Bit Server VM (build 25.161-b12, mixed mode)

computer: openjdk version "1.8.0_131" OpenJDK Runtime Environment (build 1.8.0_131-8u131-b11-2ubuntu1.16.04.3-b11) OpenJDK 64-Bit Server VM (build 25.131-b11, mixed mode)

Look forward to your response. Thank you.