save_state_file prints the full information of nodes

[giava90]

It creates a file where after the #Vertices , it writes each node with all its properties, e.g.

*Vertices 5
0 "{'inweight': array([ 0.,  0.]), 'outweight': array([ 5.,  2.]), 'indegree': 0, 'outdegree': 1}"
1 "{'inweight': array([ 11.,   3.]), 'outweight': array([ 11.,   5.]), 'indegree': 2, 'outdegree': 2}"
2 "{'inweight': array([ 0.,  0.]), 'outweight': array([ 6.,  1.]), 'indegree': 0, 'outdegree': 1}"
3 "{'inweight': array([ 5.,  3.]), 'outweight': array([ 0.,  0.]), 'indegree': 1, 'outdegree': 0}"
4 "{'inweight': array([ 6.,  2.]), 'outweight': array([ 0.,  0.]), 'indegree': 1, 'outdegree': 0}"

Instead, we usually need only its name (at least when using this .net files for infomap), e.g.

0  "1"
1 "2"
2 "3"
3 "4"
4 "5"

[giava90]

I have looked into the code and this is what I have understood/suggest.
This happens because the loop that prints the vertices is:

first_layer_map = self.layers[1].node_to_name_map()
.
.
for i in self.layers[1].nodes:
                first = first_layer_map[i]
                second = self.layers[1].nodes[i]
                file.write('{0} "{1}"\n'.format(first, second))

I suggest to use:

first_layer_map = self.layers[1].node_to_name_map()
.
.
for name, index,  in first_layer_map.items():
    file.write('{0} "{1}"\n'.format(index+1, name))

edit: We need the index+1 in the write as Infomap do not like indexes starting from 0.

[IngoScholtes]

Kamino cloned this issue to uzhdag/pathpy