I'm saving NestedState with pickle and then loading it later to use get_edges_prob.
nested_state = pickle.load( open(f"output/graphtool_output/pickle/{name}_nested_blockstate.p", "rb"))
I realized that NestedState needs a reference to the underlying graph for get_edges_prob to work. So, I try this.
G = gt.load_graph(f'output/graphtool_output/{name}.graphml') nested_state.g = G
Now, get_edges_prob is working if I use the base level of the state, like so:
def collect_edge_probs(s): s = s.levels[0] for i, non_edge in enumerate(non_edges): p = s.get_edges_prob([non_edge], [], entropy_args=dict(partition_dl=False)) non_edges_probs[i].append(p)
If I remove this " s = s.levels[0]" I'm getting an error about "invalid edge descriptor". Is there some other reference I need to recover for this to work correctly?
Any help appreciated!
Am 19.03.20 um 18:38 schrieb Deklan Webster:
I'm saving NestedState with pickle and then loading it later to use get_edges_prob.
nested_state = pickle.load( open(f"output/graphtool_output/pickle/{name}_nested_blockstate.p", "rb"))
I realized that NestedState needs a reference to the underlying graph for get_edges_prob to work. So, I try this.
G = gt.load_graph(f'output/graphtool_output/{name}.graphml') nested_state.g = G
I'm utterly puzzled by what you are trying to do.
First, unpickling should just work, there is no need for you to "fix" it.
Second, you should never ever try to modify an object like this, in graph-tool and otherwise, just by randomly changing an internal variable. In languages such as C++ this kind of meddling can be forbidden, but in Python is unfortunatelly always allowed. If you replace the graph inside a NestedBlockState, the object becomes inconsistent and corrupted. There is no need ever to try to do this, and it will never work.
Now, get_edges_prob is working if I use the base level of the state, like so:
def collect_edge_probs(s): s = s.levels[0] for i, non_edge in enumerate(non_edges): p = s.get_edges_prob([non_edge], [], entropy_args=dict(partition_dl=False)) non_edges_probs[i].append(p)
If I remove this " s = s.levels[0]" I'm getting an error about "invalid edge descriptor". Is there some other reference I need to recover for this to work correctly?
See above. In order for this to "work correctly" it must never be attempted to begin with.
Best, Tiago
Looking back at this I'm not totally sure what I was thinking... I think I saw the tiny filesize of the pickled State and assumed it was missing a reference to the graph. Anyway, I got it now. Apologies for the utter puzzlement.
Thanks as always
On Mon, Mar 23, 2020 at 10:18 AM Tiago de Paula Peixoto tiago@skewed.de wrote:
Am 19.03.20 um 18:38 schrieb Deklan Webster:
I'm saving NestedState with pickle and then loading it later to use get_edges_prob.
nested_state = pickle.load(open(f"output/graphtool_output/pickle/{name}_nested_blockstate.p",
"rb"))I realized that NestedState needs a reference to the underlying graph for get_edges_prob to work. So, I try this.
G = gt.load_graph(f'output/graphtool_output/{name}.graphml') nested_state.g = GI'm utterly puzzled by what you are trying to do.
First, unpickling should just work, there is no need for you to "fix" it.
Second, you should never ever try to modify an object like this, in graph-tool and otherwise, just by randomly changing an internal variable. In languages such as C++ this kind of meddling can be forbidden, but in Python is unfortunatelly always allowed. If you replace the graph inside a NestedBlockState, the object becomes inconsistent and corrupted. There is no need ever to try to do this, and it will never work.
Now, get_edges_prob is working if I use the base level of the state, like so:
def collect_edge_probs(s): s = s.levels[0] for i, non_edge in enumerate(non_edges): p = s.get_edges_prob([non_edge], [], entropy_args=dict(partition_dl=False)) non_edges_probs[i].append(p)If I remove this " s = s.levels[0]" I'm getting an error about "invalid edge descriptor". Is there some other reference I need to recover for this to work correctly?
See above. In order for this to "work correctly" it must never be attempted to begin with.
Best, Tiago
-- Tiago de Paula Peixoto tiago@skewed.de
graph-tool mailing list graph-tool@skewed.de https://lists.skewed.de/mailman/listinfo/graph-tool
-
Deklan Webster -
Tiago de Paula Peixoto