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When this initial states method is called, the simulation fails:
"initial_states_method": [ { "type": "custom", "number_nodes": 1, "state": "1", "node_selection_method": "random-weighted", "node_selection_criteria": [ { "property": "clustering-coefficient", "ordering": "ignore", "min": 0, "max": 2, "weight": 2 } ] } ],
Here is the output log:
********************* Begin Primary ********************* Configuring with 1 processes Running TransitionGen: python3 /csonnet-input-file-generation/transition_rules_file/src/transitiongen.py -i /input/supInput.json -o /input/rules_file -d /csonnet-input-file-generation/transition_rules_file/test/rule_set_csonnet_v3.json Loading rule data from: /csonnet-input-file-generation/transition_rules_file/test/rule_set_csonnet_v3.json rule data loaded Loading JSON data from: /input/supInput.json JSON data loaded Begin generate... Loaded Rules: 2 Generating Rule 1 1 Cause string [1] {'Parameter_1': 'edge_probability_value'} edge_probability: casting parameter to float 1 of 2 completed Generating Rule 2 {'Parameter_1': 'discrete_time_auto_value'} 2 of 2 completed Generation complete 2 rules were written executed in 0.0021278858184814453 file created at: /input/rules_file Graph file name: /input/input_file Check for blocking_nodes Generating Seed Config: ---- Start Execution ---- Reading job file: /job/job.json Debug Mode: True Output Location: /input/seedconfig Itteration: 0 type: custom state: 1 number_nodes: 1 node_selection_method: random-weighted criterion property: clustering-coefficient criterion ordering: ignore criterion min: 0 criterion max: 2 criterion weight: 2 Total execution time was: 0.0017235279083251953 seconds ---- Good Execution ---- Execute Initial States Generator: python3 /csonnet-input-file-generation/inital_states_file/seed-graph/src-v01/genSeedSetsCsonnet.py --inputGraphEdges /input/input_file --finalSelection rand_weight --seedConfig /input/seedconfig --randomNumberSeed 6213 --separator space --srcColIdx 0 --dstColIdx 1 --defaultState 0 --activeState 1 --numSets 1 --numActivated 1 --isNodeTypeInt 1 --isDirected 0 --isMultigraph 0 --process multi --initCondFile /input/initial_states_file --seedLogFile /output/seed.log.out --filterLogFile /output/filter.log.out Reading config Graph read started ... Graph read finished in 0.0002211072 seconds(s) 5 nodes and 4 edges read. Computing metrics Invoking multiprocessing to compute metrics Parallel metric computation started ... Computation of clustcf started ... Computation of clustcf finished in 0.0093127266 seconds(s) Metric computation finished in 0.2278934466 seconds(s) clustcf count 5.0 mean 0.0 std 0.0 min 0.0 25% 0.0 50% 0.0 75% 0.0 max 0.0 Node filtering finished in 0.0003275014 seconds(s) Info: clustcf will be ignored in the final node score Sampling nodes and writing output files Info: A seed is being used for random number generator Launching Simulations... Error Nodes in graph file and nodes in initial states file are different. Nodes in graph file are [14, 16, 18, 20, 22] Nodes in initial states file are set() Terminate
And here is the stderr:
(sciduct_env) bash-4.2$cat job.stderr Traceback (most recent call last): File "/csonnet-input-file-generation/inital_states_file/seed-graph/src-v01/genSeedSetsCsonnet.py", line 941, in <module> main() File "/csonnet-input-file-generation/inital_states_file/seed-graph/src-v01/genSeedSetsCsonnet.py", line 930, in main sampleNodesWriteOutput(args, node_id_list, filtered_frame.index.values, prob_array) File "/csonnet-input-file-generation/inital_states_file/seed-graph/src-v01/genSeedSetsCsonnet.py", line 636, in sampleNodesWriteOutput seed_nodes = np.sort(rng.choice(filtered_nodes, num_activated, False, prob_array)) File "_generator.pyx", line 644, in numpy.random._generator.Generator.choice ValueError: probabilities contain NaN srun: error: udc-aj36-1c1: task 0: Exited with exit code 1 srun: launch/slurm: _step_signal: Terminating StepId=47156062.1
The text was updated successfully, but these errors were encountered:
Is this fixed and ready for me to update?
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Lucaslhm
cckuhlman
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When this initial states method is called, the simulation fails:
Here is the output log:
And here is the stderr:
The text was updated successfully, but these errors were encountered: