okstra 0.107.2 → 0.109.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/package.json +1 -1
- package/runtime/BUILD.json +2 -2
- package/runtime/prompts/lead/okstra-lead-contract.md +1 -1
- package/runtime/prompts/profiles/_common-contract.md +3 -2
- package/runtime/python/okstra_ctl/graphify_cmd.py +225 -0
- package/runtime/python/okstra_ctl/resolve_task_key.py +15 -9
- package/runtime/python/okstra_ctl/session.py +44 -0
- package/runtime/python/okstra_project/__init__.py +2 -0
- package/runtime/python/okstra_project/state.py +36 -0
- package/runtime/python/okstra_token_usage/claude.py +15 -9
- package/runtime/python/okstra_token_usage/cli.py +23 -0
- package/runtime/python/okstra_token_usage/collect.py +163 -4
- package/runtime/python/okstra_vendor/__init__.py +41 -0
- package/runtime/python/okstra_vendor/graphify/.vendored-version +1 -0
- package/runtime/python/okstra_vendor/graphify/__init__.py +28 -0
- package/runtime/python/okstra_vendor/graphify/__main__.py +1371 -0
- package/runtime/python/okstra_vendor/graphify/analyze.py +540 -0
- package/runtime/python/okstra_vendor/graphify/benchmark.py +129 -0
- package/runtime/python/okstra_vendor/graphify/build.py +107 -0
- package/runtime/python/okstra_vendor/graphify/cache.py +169 -0
- package/runtime/python/okstra_vendor/graphify/cluster.py +137 -0
- package/runtime/python/okstra_vendor/graphify/detect.py +510 -0
- package/runtime/python/okstra_vendor/graphify/export.py +1014 -0
- package/runtime/python/okstra_vendor/graphify/extract.py +3277 -0
- package/runtime/python/okstra_vendor/graphify/hooks.py +220 -0
- package/runtime/python/okstra_vendor/graphify/ingest.py +297 -0
- package/runtime/python/okstra_vendor/graphify/manifest.py +4 -0
- package/runtime/python/okstra_vendor/graphify/report.py +175 -0
- package/runtime/python/okstra_vendor/graphify/security.py +203 -0
- package/runtime/python/okstra_vendor/graphify/serve.py +373 -0
- package/runtime/python/okstra_vendor/graphify/skill-aider.md +1184 -0
- package/runtime/python/okstra_vendor/graphify/skill-claw.md +1184 -0
- package/runtime/python/okstra_vendor/graphify/skill-codex.md +1242 -0
- package/runtime/python/okstra_vendor/graphify/skill-copilot.md +1268 -0
- package/runtime/python/okstra_vendor/graphify/skill-droid.md +1239 -0
- package/runtime/python/okstra_vendor/graphify/skill-kiro.md +1183 -0
- package/runtime/python/okstra_vendor/graphify/skill-opencode.md +1238 -0
- package/runtime/python/okstra_vendor/graphify/skill-trae.md +1208 -0
- package/runtime/python/okstra_vendor/graphify/skill-vscode.md +253 -0
- package/runtime/python/okstra_vendor/graphify/skill-windows.md +1245 -0
- package/runtime/python/okstra_vendor/graphify/skill.md +1319 -0
- package/runtime/python/okstra_vendor/graphify/transcribe.py +182 -0
- package/runtime/python/okstra_vendor/graphify/validate.py +72 -0
- package/runtime/python/okstra_vendor/graphify/watch.py +188 -0
- package/runtime/python/okstra_vendor/graphify/wiki.py +214 -0
- package/runtime/python/okstra_vendor/networkx/__init__.py +62 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/__init__.py +134 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/__init__.py +26 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/clique.py +259 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/clustering_coefficient.py +71 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/connectivity.py +412 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/density.py +396 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/distance_measures.py +150 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/dominating_set.py +149 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/kcomponents.py +369 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/matching.py +44 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/maxcut.py +143 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/ramsey.py +53 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/steinertree.py +265 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_approx_clust_coeff.py +41 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_clique.py +112 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_connectivity.py +199 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_density.py +146 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_distance_measures.py +59 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_dominating_set.py +78 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_kcomponents.py +303 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_matching.py +8 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_maxcut.py +94 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_ramsey.py +31 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_steinertree.py +306 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_traveling_salesman.py +1014 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_treewidth.py +274 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_vertex_cover.py +68 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/traveling_salesman.py +1508 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/treewidth.py +255 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/approximation/vertex_cover.py +83 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/__init__.py +5 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/connectivity.py +122 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/correlation.py +302 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/mixing.py +255 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/neighbor_degree.py +160 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/pairs.py +127 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/base_test.py +81 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/test_connectivity.py +143 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/test_correlation.py +122 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/test_mixing.py +174 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/test_neighbor_degree.py +107 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/test_pairs.py +87 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/asteroidal.py +164 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/__init__.py +88 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/basic.py +322 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/centrality.py +290 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/cluster.py +289 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/covering.py +57 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/edgelist.py +360 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/extendability.py +105 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/generators.py +603 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/link_analysis.py +316 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/matching.py +590 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/matrix.py +232 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/projection.py +526 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/redundancy.py +112 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/spectral.py +69 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_basic.py +125 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_centrality.py +192 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_cluster.py +84 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_covering.py +33 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_edgelist.py +240 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_extendability.py +334 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_generators.py +407 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_link_analysis.py +218 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_matching.py +327 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_matrix.py +138 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_project.py +409 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_redundancy.py +35 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_spectral_bipartivity.py +80 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/boundary.py +168 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/bridges.py +205 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/broadcasting.py +164 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/__init__.py +20 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/betweenness.py +591 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/betweenness_subset.py +236 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/closeness.py +282 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/current_flow_betweenness.py +364 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/current_flow_betweenness_subset.py +227 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/current_flow_closeness.py +96 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/degree_alg.py +150 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/dispersion.py +107 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/eigenvector.py +357 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/flow_matrix.py +130 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/group.py +787 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/harmonic.py +88 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/katz.py +331 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/laplacian.py +150 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/load.py +200 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/percolation.py +128 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/reaching.py +209 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/second_order.py +141 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/subgraph_alg.py +361 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_betweenness_centrality.py +923 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_betweenness_centrality_subset.py +354 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_closeness_centrality.py +274 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_current_flow_betweenness_centrality.py +259 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_current_flow_betweenness_centrality_subset.py +147 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_current_flow_closeness.py +43 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_degree_centrality.py +144 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_dispersion.py +73 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_eigenvector_centrality.py +186 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_group.py +277 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_harmonic_centrality.py +122 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_katz_centrality.py +345 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_laplacian_centrality.py +220 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_load_centrality.py +344 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_percolation_centrality.py +87 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_reaching.py +140 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_second_order_centrality.py +82 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_subgraph.py +110 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_trophic.py +302 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_voterank.py +64 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/trophic.py +181 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/centrality/voterank_alg.py +95 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/chains.py +172 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/chordal.py +443 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/clique.py +818 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/cluster.py +732 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/coloring/__init__.py +4 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/coloring/equitable_coloring.py +505 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/coloring/greedy_coloring.py +565 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/coloring/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/coloring/tests/test_coloring.py +863 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/communicability_alg.py +163 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/__init__.py +28 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/asyn_fluid.py +153 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/bipartitions.py +354 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/centrality.py +171 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/community_utils.py +30 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/divisive.py +216 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/kclique.py +79 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/label_propagation.py +338 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/leiden.py +162 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/local.py +220 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/louvain.py +384 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/lukes.py +227 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/modularity_max.py +452 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/quality.py +347 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_asyn_fluid.py +147 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_bipartitions.py +157 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_centrality.py +85 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_divisive.py +106 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_kclique.py +91 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_label_propagation.py +241 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_leiden.py +138 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_local.py +76 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_louvain.py +264 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_lukes.py +152 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_modularity_max.py +340 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_quality.py +139 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_utils.py +26 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/__init__.py +6 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/attracting.py +115 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/biconnected.py +394 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/connected.py +282 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/semiconnected.py +71 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/strongly_connected.py +359 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_attracting.py +70 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_biconnected.py +248 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_connected.py +138 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_semiconnected.py +55 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_strongly_connected.py +193 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_weakly_connected.py +96 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/components/weakly_connected.py +196 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/__init__.py +11 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/connectivity.py +811 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/cuts.py +616 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/disjoint_paths.py +408 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/edge_augmentation.py +1270 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/edge_kcomponents.py +592 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/kcomponents.py +220 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/kcutsets.py +235 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/stoerwagner.py +152 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_connectivity.py +421 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_cuts.py +309 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_disjoint_paths.py +249 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_edge_augmentation.py +502 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_edge_kcomponents.py +488 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_kcomponents.py +323 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_kcutsets.py +280 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_stoer_wagner.py +102 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/utils.py +88 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/core.py +588 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/covering.py +142 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/cuts.py +416 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/cycles.py +1234 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/d_separation.py +677 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/dag.py +1392 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/distance_measures.py +1095 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/distance_regular.py +272 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/dominance.py +142 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/dominating.py +268 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/efficiency_measures.py +167 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/euler.py +470 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/__init__.py +11 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/boykovkolmogorov.py +370 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/capacityscaling.py +407 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/dinitz_alg.py +238 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/edmondskarp.py +241 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/gomory_hu.py +178 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/maxflow.py +611 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/mincost.py +356 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/networksimplex.py +662 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/preflowpush.py +425 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/shortestaugmentingpath.py +300 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/tests/gl1.gpickle.bz2 +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/tests/gw1.gpickle.bz2 +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/tests/netgen-2.gpickle.bz2 +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/tests/test_gomory_hu.py +128 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/tests/test_maxflow.py +573 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/tests/test_maxflow_large_graph.py +155 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/tests/test_mincost.py +475 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/tests/test_networksimplex.py +481 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/tests/wlm3.gpickle.bz2 +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/flow/utils.py +194 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/graph_hashing.py +435 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/graphical.py +483 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/hierarchy.py +57 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/hybrid.py +196 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isolate.py +107 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/__init__.py +7 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/ismags.py +1306 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/isomorph.py +336 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/isomorphvf2.py +1262 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/matchhelpers.py +352 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/temporalisomorphvf2.py +308 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/iso_r01_s80.A99 +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/iso_r01_s80.B99 +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/si2_b06_m200.A99 +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/si2_b06_m200.B99 +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/test_ismags.py +719 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/test_isomorphism.py +103 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/test_isomorphvf2.py +490 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/test_match_helpers.py +64 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/test_temporalisomorphvf2.py +212 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/test_tree_isomorphism.py +202 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/test_vf2pp.py +1655 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/test_vf2pp_helpers.py +3118 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tests/test_vf2userfunc.py +196 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/tree_isomorphism.py +264 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/vf2pp.py +1102 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/isomorphism/vf2userfunc.py +192 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/link_analysis/__init__.py +2 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/link_analysis/hits_alg.py +337 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/link_analysis/pagerank_alg.py +498 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/link_analysis/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/link_analysis/tests/test_hits.py +77 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/link_analysis/tests/test_pagerank.py +213 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/link_prediction.py +687 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/lowest_common_ancestors.py +280 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/matching.py +1148 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/minors/__init__.py +27 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/minors/contraction.py +738 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/minors/tests/test_contraction.py +544 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/mis.py +78 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/moral.py +59 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/node_classification.py +219 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/non_randomness.py +155 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/operators/__init__.py +4 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/operators/all.py +324 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/operators/binary.py +468 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/operators/product.py +633 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/operators/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/operators/tests/test_all.py +328 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/operators/tests/test_binary.py +451 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/operators/tests/test_product.py +491 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/operators/tests/test_unary.py +55 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/operators/unary.py +77 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/perfect_graph.py +73 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/planar_drawing.py +464 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/planarity.py +1463 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/polynomials.py +306 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/reciprocity.py +98 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/regular.py +167 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/richclub.py +138 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/__init__.py +5 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/astar.py +239 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/dense.py +264 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/generic.py +716 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/tests/test_astar.py +254 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/tests/test_dense.py +212 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/tests/test_dense_numpy.py +88 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/tests/test_generic.py +511 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/tests/test_unweighted.py +149 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/tests/test_weighted.py +983 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/unweighted.py +625 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/shortest_paths/weighted.py +2542 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/similarity.py +2107 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/simple_paths.py +966 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/smallworld.py +404 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/smetric.py +30 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/sparsifiers.py +296 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/structuralholes.py +374 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/summarization.py +564 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/swap.py +406 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_asteroidal.py +23 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_boundary.py +154 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_bridges.py +144 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_broadcasting.py +109 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_chains.py +136 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_chordal.py +129 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_clique.py +300 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_cluster.py +678 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_communicability.py +80 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_core.py +266 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_covering.py +85 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_cuts.py +171 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_cycles.py +984 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_d_separation.py +340 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_dag.py +835 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_distance_measures.py +831 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_distance_regular.py +85 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_dominance.py +299 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_dominating.py +115 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_efficiency.py +58 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_euler.py +314 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_graph_hashing.py +872 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_graphical.py +163 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_hierarchy.py +46 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_hybrid.py +24 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_isolate.py +26 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_link_prediction.py +615 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_lowest_common_ancestors.py +459 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_matching.py +556 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_max_weight_clique.py +179 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_mis.py +62 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_moral.py +15 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_node_classification.py +140 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_non_randomness.py +60 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_perfect_graph.py +27 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_planar_drawing.py +274 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_planarity.py +556 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_polynomials.py +57 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_reciprocity.py +37 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_regular.py +88 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_richclub.py +149 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_similarity.py +1158 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_simple_paths.py +803 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_smallworld.py +76 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_smetric.py +8 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_sparsifiers.py +138 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_structuralholes.py +191 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_summarization.py +642 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_swap.py +179 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_threshold.py +270 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_time_dependent.py +431 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_tournament.py +161 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_triads.py +248 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_vitality.py +41 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_voronoi.py +103 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_walks.py +54 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tests/test_wiener.py +157 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/threshold.py +981 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/time_dependent.py +142 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tournament.py +406 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/__init__.py +5 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/beamsearch.py +90 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/breadth_first_search.py +576 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/depth_first_search.py +529 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/edgebfs.py +185 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/edgedfs.py +182 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/tests/test_beamsearch.py +25 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/tests/test_bfs.py +203 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/tests/test_dfs.py +307 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/tests/test_edgebfs.py +147 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/traversal/tests/test_edgedfs.py +131 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/__init__.py +7 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/branchings.py +1042 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/coding.py +413 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/decomposition.py +88 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/distance_measures.py +219 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/mst.py +1281 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/operations.py +106 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/recognition.py +273 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/tests/test_branchings.py +624 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/tests/test_coding.py +114 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/tests/test_decomposition.py +79 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/tests/test_distance_measures.py +99 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/tests/test_mst.py +934 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/tests/test_operations.py +53 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/tree/tests/test_recognition.py +174 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/triads.py +500 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/vitality.py +76 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/voronoi.py +86 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/walks.py +77 -0
- package/runtime/python/okstra_vendor/networkx/algorithms/wiener.py +278 -0
- package/runtime/python/okstra_vendor/networkx/classes/__init__.py +13 -0
- package/runtime/python/okstra_vendor/networkx/classes/coreviews.py +435 -0
- package/runtime/python/okstra_vendor/networkx/classes/digraph.py +1363 -0
- package/runtime/python/okstra_vendor/networkx/classes/filters.py +95 -0
- package/runtime/python/okstra_vendor/networkx/classes/function.py +1549 -0
- package/runtime/python/okstra_vendor/networkx/classes/graph.py +2082 -0
- package/runtime/python/okstra_vendor/networkx/classes/graphviews.py +269 -0
- package/runtime/python/okstra_vendor/networkx/classes/multidigraph.py +977 -0
- package/runtime/python/okstra_vendor/networkx/classes/multigraph.py +1294 -0
- package/runtime/python/okstra_vendor/networkx/classes/reportviews.py +1447 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/dispatch_interface.py +192 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/historical_tests.py +476 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_coreviews.py +362 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_digraph.py +331 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_digraph_historical.py +110 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_filters.py +177 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_function.py +1045 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_graph.py +950 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_graph_historical.py +12 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_graphviews.py +349 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_multidigraph.py +459 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_multigraph.py +528 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_reportviews.py +1421 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_special.py +131 -0
- package/runtime/python/okstra_vendor/networkx/classes/tests/test_subgraphviews.py +371 -0
- package/runtime/python/okstra_vendor/networkx/conftest.py +261 -0
- package/runtime/python/okstra_vendor/networkx/convert.py +502 -0
- package/runtime/python/okstra_vendor/networkx/convert_matrix.py +1314 -0
- package/runtime/python/okstra_vendor/networkx/drawing/__init__.py +7 -0
- package/runtime/python/okstra_vendor/networkx/drawing/layout.py +2036 -0
- package/runtime/python/okstra_vendor/networkx/drawing/nx_agraph.py +470 -0
- package/runtime/python/okstra_vendor/networkx/drawing/nx_latex.py +570 -0
- package/runtime/python/okstra_vendor/networkx/drawing/nx_pydot.py +361 -0
- package/runtime/python/okstra_vendor/networkx/drawing/nx_pylab.py +2978 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/baseline/test_display_complex.png +0 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/baseline/test_display_empty_graph.png +0 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/baseline/test_display_house_with_colors.png +0 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/baseline/test_display_labels_and_colors.png +0 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/baseline/test_display_shortest_path.png +0 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/baseline/test_house_with_colors.png +0 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/test_agraph.py +237 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/test_image_comparison_pylab_mpl.py +229 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/test_latex.py +285 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/test_layout.py +631 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/test_pydot.py +146 -0
- package/runtime/python/okstra_vendor/networkx/drawing/tests/test_pylab.py +1582 -0
- package/runtime/python/okstra_vendor/networkx/exception.py +131 -0
- package/runtime/python/okstra_vendor/networkx/generators/__init__.py +34 -0
- package/runtime/python/okstra_vendor/networkx/generators/atlas.dat.gz +0 -0
- package/runtime/python/okstra_vendor/networkx/generators/atlas.py +227 -0
- package/runtime/python/okstra_vendor/networkx/generators/classic.py +1091 -0
- package/runtime/python/okstra_vendor/networkx/generators/cographs.py +68 -0
- package/runtime/python/okstra_vendor/networkx/generators/community.py +1070 -0
- package/runtime/python/okstra_vendor/networkx/generators/degree_seq.py +886 -0
- package/runtime/python/okstra_vendor/networkx/generators/directed.py +572 -0
- package/runtime/python/okstra_vendor/networkx/generators/duplication.py +174 -0
- package/runtime/python/okstra_vendor/networkx/generators/ego.py +66 -0
- package/runtime/python/okstra_vendor/networkx/generators/expanders.py +499 -0
- package/runtime/python/okstra_vendor/networkx/generators/geometric.py +1037 -0
- package/runtime/python/okstra_vendor/networkx/generators/harary_graph.py +163 -0
- package/runtime/python/okstra_vendor/networkx/generators/internet_as_graphs.py +443 -0
- package/runtime/python/okstra_vendor/networkx/generators/intersection.py +125 -0
- package/runtime/python/okstra_vendor/networkx/generators/interval_graph.py +70 -0
- package/runtime/python/okstra_vendor/networkx/generators/joint_degree_seq.py +664 -0
- package/runtime/python/okstra_vendor/networkx/generators/lattice.py +405 -0
- package/runtime/python/okstra_vendor/networkx/generators/line.py +501 -0
- package/runtime/python/okstra_vendor/networkx/generators/mycielski.py +110 -0
- package/runtime/python/okstra_vendor/networkx/generators/nonisomorphic_trees.py +259 -0
- package/runtime/python/okstra_vendor/networkx/generators/random_clustered.py +117 -0
- package/runtime/python/okstra_vendor/networkx/generators/random_graphs.py +1416 -0
- package/runtime/python/okstra_vendor/networkx/generators/small.py +1070 -0
- package/runtime/python/okstra_vendor/networkx/generators/social.py +554 -0
- package/runtime/python/okstra_vendor/networkx/generators/spectral_graph_forge.py +120 -0
- package/runtime/python/okstra_vendor/networkx/generators/stochastic.py +54 -0
- package/runtime/python/okstra_vendor/networkx/generators/sudoku.py +131 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_atlas.py +75 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_classic.py +642 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_cographs.py +20 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_community.py +362 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_degree_seq.py +224 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_directed.py +189 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_duplication.py +103 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_ego.py +39 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_expanders.py +182 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_geometric.py +488 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_harary_graph.py +133 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_internet_as_graphs.py +221 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_intersection.py +28 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_interval_graph.py +144 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_joint_degree_seq.py +125 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_lattice.py +264 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_line.py +316 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_mycielski.py +30 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_nonisomorphic_trees.py +82 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_random_clustered.py +33 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_random_graphs.py +495 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_small.py +220 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_spectral_graph_forge.py +49 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_stochastic.py +72 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_sudoku.py +92 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_time_series.py +64 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_trees.py +195 -0
- package/runtime/python/okstra_vendor/networkx/generators/tests/test_triads.py +15 -0
- package/runtime/python/okstra_vendor/networkx/generators/time_series.py +74 -0
- package/runtime/python/okstra_vendor/networkx/generators/trees.py +1070 -0
- package/runtime/python/okstra_vendor/networkx/generators/triads.py +94 -0
- package/runtime/python/okstra_vendor/networkx/lazy_imports.py +188 -0
- package/runtime/python/okstra_vendor/networkx/linalg/__init__.py +13 -0
- package/runtime/python/okstra_vendor/networkx/linalg/algebraicconnectivity.py +650 -0
- package/runtime/python/okstra_vendor/networkx/linalg/attrmatrix.py +466 -0
- package/runtime/python/okstra_vendor/networkx/linalg/bethehessianmatrix.py +77 -0
- package/runtime/python/okstra_vendor/networkx/linalg/graphmatrix.py +168 -0
- package/runtime/python/okstra_vendor/networkx/linalg/laplacianmatrix.py +512 -0
- package/runtime/python/okstra_vendor/networkx/linalg/modularitymatrix.py +166 -0
- package/runtime/python/okstra_vendor/networkx/linalg/spectrum.py +186 -0
- package/runtime/python/okstra_vendor/networkx/linalg/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/linalg/tests/test_algebraic_connectivity.py +400 -0
- package/runtime/python/okstra_vendor/networkx/linalg/tests/test_attrmatrix.py +108 -0
- package/runtime/python/okstra_vendor/networkx/linalg/tests/test_bethehessian.py +40 -0
- package/runtime/python/okstra_vendor/networkx/linalg/tests/test_graphmatrix.py +275 -0
- package/runtime/python/okstra_vendor/networkx/linalg/tests/test_laplacian.py +334 -0
- package/runtime/python/okstra_vendor/networkx/linalg/tests/test_modularity.py +86 -0
- package/runtime/python/okstra_vendor/networkx/linalg/tests/test_spectrum.py +70 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/__init__.py +17 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/adjlist.py +330 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/edgelist.py +489 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/gexf.py +1084 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/gml.py +879 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/graph6.py +427 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/graphml.py +1053 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/json_graph/__init__.py +19 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/json_graph/adjacency.py +156 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/json_graph/cytoscape.py +190 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/json_graph/node_link.py +261 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/json_graph/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/json_graph/tests/test_adjacency.py +78 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/json_graph/tests/test_cytoscape.py +78 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/json_graph/tests/test_node_link.py +109 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/json_graph/tests/test_tree.py +48 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/json_graph/tree.py +137 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/leda.py +108 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/multiline_adjlist.py +393 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/p2g.py +113 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/pajek.py +286 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/sparse6.py +379 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/test_adjlist.py +354 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/test_edgelist.py +318 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/test_gexf.py +612 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/test_gml.py +744 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/test_graph6.py +181 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/test_graphml.py +1531 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/test_leda.py +30 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/test_p2g.py +63 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/test_pajek.py +128 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/test_sparse6.py +166 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/tests/test_text.py +1742 -0
- package/runtime/python/okstra_vendor/networkx/readwrite/text.py +851 -0
- package/runtime/python/okstra_vendor/networkx/relabel.py +285 -0
- package/runtime/python/okstra_vendor/networkx/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/tests/test_all_random_functions.py +248 -0
- package/runtime/python/okstra_vendor/networkx/tests/test_convert.py +321 -0
- package/runtime/python/okstra_vendor/networkx/tests/test_convert_numpy.py +531 -0
- package/runtime/python/okstra_vendor/networkx/tests/test_convert_pandas.py +349 -0
- package/runtime/python/okstra_vendor/networkx/tests/test_convert_scipy.py +281 -0
- package/runtime/python/okstra_vendor/networkx/tests/test_exceptions.py +40 -0
- package/runtime/python/okstra_vendor/networkx/tests/test_import.py +11 -0
- package/runtime/python/okstra_vendor/networkx/tests/test_lazy_imports.py +96 -0
- package/runtime/python/okstra_vendor/networkx/tests/test_relabel.py +349 -0
- package/runtime/python/okstra_vendor/networkx/tests/test_removed_functions_exception_messages.py +8 -0
- package/runtime/python/okstra_vendor/networkx/utils/__init__.py +8 -0
- package/runtime/python/okstra_vendor/networkx/utils/backends.py +2171 -0
- package/runtime/python/okstra_vendor/networkx/utils/configs.py +396 -0
- package/runtime/python/okstra_vendor/networkx/utils/decorators.py +1233 -0
- package/runtime/python/okstra_vendor/networkx/utils/heaps.py +338 -0
- package/runtime/python/okstra_vendor/networkx/utils/mapped_queue.py +297 -0
- package/runtime/python/okstra_vendor/networkx/utils/misc.py +703 -0
- package/runtime/python/okstra_vendor/networkx/utils/random_sequence.py +198 -0
- package/runtime/python/okstra_vendor/networkx/utils/rcm.py +159 -0
- package/runtime/python/okstra_vendor/networkx/utils/tests/__init__.py +0 -0
- package/runtime/python/okstra_vendor/networkx/utils/tests/test__init.py +11 -0
- package/runtime/python/okstra_vendor/networkx/utils/tests/test_backends.py +225 -0
- package/runtime/python/okstra_vendor/networkx/utils/tests/test_config.py +263 -0
- package/runtime/python/okstra_vendor/networkx/utils/tests/test_decorators.py +510 -0
- package/runtime/python/okstra_vendor/networkx/utils/tests/test_heaps.py +131 -0
- package/runtime/python/okstra_vendor/networkx/utils/tests/test_mapped_queue.py +268 -0
- package/runtime/python/okstra_vendor/networkx/utils/tests/test_misc.py +393 -0
- package/runtime/python/okstra_vendor/networkx/utils/tests/test_random_sequence.py +53 -0
- package/runtime/python/okstra_vendor/networkx/utils/tests/test_rcm.py +63 -0
- package/runtime/python/okstra_vendor/networkx/utils/tests/test_unionfind.py +55 -0
- package/runtime/python/okstra_vendor/networkx/utils/union_find.py +106 -0
- package/runtime/skills/okstra-graphify/SKILL.md +161 -0
- package/runtime/skills/okstra-inspect/SKILL.md +17 -9
- package/runtime/templates/reports/settings.template.json +4 -0
- package/runtime/validators/forbidden_actions.py +8 -2
- package/runtime/validators/validate_session_conformance.py +26 -5
- package/src/cli-registry.mjs +7 -0
- package/src/commands/graphify.mjs +32 -0
- package/src/commands/lifecycle/doctor.mjs +9 -0
- package/src/lib/skill-catalog.mjs +1 -0
|
@@ -0,0 +1,818 @@
|
|
|
1
|
+
"""Functions for finding and manipulating cliques.
|
|
2
|
+
|
|
3
|
+
Finding the largest clique in a graph is NP-complete problem, so most of
|
|
4
|
+
these algorithms have an exponential running time; for more information,
|
|
5
|
+
see the Wikipedia article on the clique problem [1]_.
|
|
6
|
+
|
|
7
|
+
.. [1] clique problem:: https://en.wikipedia.org/wiki/Clique_problem
|
|
8
|
+
|
|
9
|
+
"""
|
|
10
|
+
|
|
11
|
+
from collections import Counter, defaultdict, deque
|
|
12
|
+
from itertools import chain, combinations, islice
|
|
13
|
+
|
|
14
|
+
import networkx as nx
|
|
15
|
+
from networkx.utils import not_implemented_for
|
|
16
|
+
|
|
17
|
+
__all__ = [
|
|
18
|
+
"find_cliques",
|
|
19
|
+
"find_cliques_recursive",
|
|
20
|
+
"make_max_clique_graph",
|
|
21
|
+
"make_clique_bipartite",
|
|
22
|
+
"node_clique_number",
|
|
23
|
+
"number_of_cliques",
|
|
24
|
+
"enumerate_all_cliques",
|
|
25
|
+
"max_weight_clique",
|
|
26
|
+
]
|
|
27
|
+
|
|
28
|
+
|
|
29
|
+
@not_implemented_for("directed")
|
|
30
|
+
@nx._dispatchable
|
|
31
|
+
def enumerate_all_cliques(G):
|
|
32
|
+
"""Returns all cliques in an undirected graph.
|
|
33
|
+
|
|
34
|
+
This function returns an iterator over cliques, each of which is a
|
|
35
|
+
list of nodes. The iteration is ordered by cardinality of the
|
|
36
|
+
cliques: first all cliques of size one, then all cliques of size
|
|
37
|
+
two, etc.
|
|
38
|
+
|
|
39
|
+
Parameters
|
|
40
|
+
----------
|
|
41
|
+
G : NetworkX graph
|
|
42
|
+
An undirected graph.
|
|
43
|
+
|
|
44
|
+
Returns
|
|
45
|
+
-------
|
|
46
|
+
iterator
|
|
47
|
+
An iterator over cliques, each of which is a list of nodes in
|
|
48
|
+
`G`. The cliques are ordered according to size.
|
|
49
|
+
|
|
50
|
+
Notes
|
|
51
|
+
-----
|
|
52
|
+
To obtain a list of all cliques, use
|
|
53
|
+
`list(enumerate_all_cliques(G))`. However, be aware that in the
|
|
54
|
+
worst-case, the length of this list can be exponential in the number
|
|
55
|
+
of nodes in the graph (for example, when the graph is the complete
|
|
56
|
+
graph). This function avoids storing all cliques in memory by only
|
|
57
|
+
keeping current candidate node lists in memory during its search.
|
|
58
|
+
|
|
59
|
+
The implementation is adapted from the algorithm by Zhang, et
|
|
60
|
+
al. (2005) [1]_ to output all cliques discovered.
|
|
61
|
+
|
|
62
|
+
This algorithm ignores self-loops and parallel edges, since cliques
|
|
63
|
+
are not conventionally defined with such edges.
|
|
64
|
+
|
|
65
|
+
References
|
|
66
|
+
----------
|
|
67
|
+
.. [1] Yun Zhang, Abu-Khzam, F.N., Baldwin, N.E., Chesler, E.J.,
|
|
68
|
+
Langston, M.A., Samatova, N.F.,
|
|
69
|
+
"Genome-Scale Computational Approaches to Memory-Intensive
|
|
70
|
+
Applications in Systems Biology".
|
|
71
|
+
*Supercomputing*, 2005. Proceedings of the ACM/IEEE SC 2005
|
|
72
|
+
Conference, pp. 12, 12--18 Nov. 2005.
|
|
73
|
+
<https://doi.org/10.1109/SC.2005.29>.
|
|
74
|
+
|
|
75
|
+
"""
|
|
76
|
+
index = {}
|
|
77
|
+
nbrs = {}
|
|
78
|
+
for u in G:
|
|
79
|
+
index[u] = len(index)
|
|
80
|
+
# Neighbors of u that appear after u in the iteration order of G.
|
|
81
|
+
nbrs[u] = {v for v in G[u] if v not in index}
|
|
82
|
+
|
|
83
|
+
queue = deque(([u], sorted(nbrs[u], key=index.__getitem__)) for u in G)
|
|
84
|
+
# Loop invariants:
|
|
85
|
+
# 1. len(base) is nondecreasing.
|
|
86
|
+
# 2. (base + cnbrs) is sorted with respect to the iteration order of G.
|
|
87
|
+
# 3. cnbrs is a set of common neighbors of nodes in base.
|
|
88
|
+
while queue:
|
|
89
|
+
base, cnbrs = map(list, queue.popleft())
|
|
90
|
+
yield base
|
|
91
|
+
for i, u in enumerate(cnbrs):
|
|
92
|
+
# Use generators to reduce memory consumption.
|
|
93
|
+
queue.append(
|
|
94
|
+
(
|
|
95
|
+
chain(base, [u]),
|
|
96
|
+
filter(nbrs[u].__contains__, islice(cnbrs, i + 1, None)),
|
|
97
|
+
)
|
|
98
|
+
)
|
|
99
|
+
|
|
100
|
+
|
|
101
|
+
@not_implemented_for("directed")
|
|
102
|
+
@nx._dispatchable
|
|
103
|
+
def find_cliques(G, nodes=None):
|
|
104
|
+
"""Returns all maximal cliques in an undirected graph.
|
|
105
|
+
|
|
106
|
+
For each node *n*, a *maximal clique for n* is a largest complete
|
|
107
|
+
subgraph containing *n*. The largest maximal clique is sometimes
|
|
108
|
+
called the *maximum clique*.
|
|
109
|
+
|
|
110
|
+
This function returns an iterator over cliques, each of which is a
|
|
111
|
+
list of nodes. It is an iterative implementation, so should not
|
|
112
|
+
suffer from recursion depth issues.
|
|
113
|
+
|
|
114
|
+
This function accepts a list of `nodes` and only the maximal cliques
|
|
115
|
+
containing all of these `nodes` are returned. It can considerably speed up
|
|
116
|
+
the running time if some specific cliques are desired.
|
|
117
|
+
|
|
118
|
+
Parameters
|
|
119
|
+
----------
|
|
120
|
+
G : NetworkX graph
|
|
121
|
+
An undirected graph.
|
|
122
|
+
|
|
123
|
+
nodes : list, optional (default=None)
|
|
124
|
+
If provided, only yield *maximal cliques* containing all nodes in `nodes`.
|
|
125
|
+
If `nodes` isn't a clique itself, a ValueError is raised.
|
|
126
|
+
|
|
127
|
+
Returns
|
|
128
|
+
-------
|
|
129
|
+
iterator
|
|
130
|
+
An iterator over maximal cliques, each of which is a list of
|
|
131
|
+
nodes in `G`. If `nodes` is provided, only the maximal cliques
|
|
132
|
+
containing all the nodes in `nodes` are returned. The order of
|
|
133
|
+
cliques is arbitrary.
|
|
134
|
+
|
|
135
|
+
Raises
|
|
136
|
+
------
|
|
137
|
+
ValueError
|
|
138
|
+
If `nodes` is not a clique.
|
|
139
|
+
|
|
140
|
+
Examples
|
|
141
|
+
--------
|
|
142
|
+
>>> from pprint import pprint # For nice dict formatting
|
|
143
|
+
>>> G = nx.karate_club_graph()
|
|
144
|
+
>>> sum(1 for c in nx.find_cliques(G)) # The number of maximal cliques in G
|
|
145
|
+
36
|
|
146
|
+
>>> max(nx.find_cliques(G), key=len) # The largest maximal clique in G
|
|
147
|
+
[0, 1, 2, 3, 13]
|
|
148
|
+
|
|
149
|
+
The size of the largest maximal clique is known as the *clique number* of
|
|
150
|
+
the graph, which can be found directly with:
|
|
151
|
+
|
|
152
|
+
>>> max(len(c) for c in nx.find_cliques(G))
|
|
153
|
+
5
|
|
154
|
+
|
|
155
|
+
One can also compute the number of maximal cliques in `G` that contain a given
|
|
156
|
+
node. The following produces a dictionary keyed by node whose
|
|
157
|
+
values are the number of maximal cliques in `G` that contain the node:
|
|
158
|
+
|
|
159
|
+
>>> from collections import Counter
|
|
160
|
+
>>> from itertools import chain
|
|
161
|
+
>>> counts = Counter(chain.from_iterable(nx.find_cliques(G)))
|
|
162
|
+
>>> pprint(dict(counts))
|
|
163
|
+
{0: 13,
|
|
164
|
+
1: 6,
|
|
165
|
+
2: 7,
|
|
166
|
+
3: 3,
|
|
167
|
+
4: 2,
|
|
168
|
+
5: 3,
|
|
169
|
+
6: 3,
|
|
170
|
+
7: 1,
|
|
171
|
+
8: 3,
|
|
172
|
+
9: 2,
|
|
173
|
+
10: 2,
|
|
174
|
+
11: 1,
|
|
175
|
+
12: 1,
|
|
176
|
+
13: 2,
|
|
177
|
+
14: 1,
|
|
178
|
+
15: 1,
|
|
179
|
+
16: 1,
|
|
180
|
+
17: 1,
|
|
181
|
+
18: 1,
|
|
182
|
+
19: 2,
|
|
183
|
+
20: 1,
|
|
184
|
+
21: 1,
|
|
185
|
+
22: 1,
|
|
186
|
+
23: 3,
|
|
187
|
+
24: 2,
|
|
188
|
+
25: 2,
|
|
189
|
+
26: 1,
|
|
190
|
+
27: 3,
|
|
191
|
+
28: 2,
|
|
192
|
+
29: 2,
|
|
193
|
+
30: 2,
|
|
194
|
+
31: 4,
|
|
195
|
+
32: 9,
|
|
196
|
+
33: 14}
|
|
197
|
+
|
|
198
|
+
Or, similarly, the maximal cliques in `G` that contain a given node.
|
|
199
|
+
For example, the 4 maximal cliques that contain node 31:
|
|
200
|
+
|
|
201
|
+
>>> [c for c in nx.find_cliques(G) if 31 in c]
|
|
202
|
+
[[0, 31], [33, 32, 31], [33, 28, 31], [24, 25, 31]]
|
|
203
|
+
|
|
204
|
+
See Also
|
|
205
|
+
--------
|
|
206
|
+
find_cliques_recursive
|
|
207
|
+
A recursive version of the same algorithm.
|
|
208
|
+
|
|
209
|
+
Notes
|
|
210
|
+
-----
|
|
211
|
+
To obtain a list of all maximal cliques, use
|
|
212
|
+
`list(find_cliques(G))`. However, be aware that in the worst-case,
|
|
213
|
+
the length of this list can be exponential in the number of nodes in
|
|
214
|
+
the graph. This function avoids storing all cliques in memory by
|
|
215
|
+
only keeping current candidate node lists in memory during its search.
|
|
216
|
+
|
|
217
|
+
This implementation is based on the algorithm published by Bron and
|
|
218
|
+
Kerbosch (1973) [1]_, as adapted by Tomita, Tanaka and Takahashi
|
|
219
|
+
(2006) [2]_ and discussed in Cazals and Karande (2008) [3]_. It
|
|
220
|
+
essentially unrolls the recursion used in the references to avoid
|
|
221
|
+
issues of recursion stack depth (for a recursive implementation, see
|
|
222
|
+
:func:`find_cliques_recursive`).
|
|
223
|
+
|
|
224
|
+
This algorithm ignores self-loops and parallel edges, since cliques
|
|
225
|
+
are not conventionally defined with such edges.
|
|
226
|
+
|
|
227
|
+
References
|
|
228
|
+
----------
|
|
229
|
+
.. [1] Bron, C. and Kerbosch, J.
|
|
230
|
+
"Algorithm 457: finding all cliques of an undirected graph".
|
|
231
|
+
*Communications of the ACM* 16, 9 (Sep. 1973), 575--577.
|
|
232
|
+
<http://portal.acm.org/citation.cfm?doid=362342.362367>
|
|
233
|
+
|
|
234
|
+
.. [2] Etsuji Tomita, Akira Tanaka, Haruhisa Takahashi,
|
|
235
|
+
"The worst-case time complexity for generating all maximal
|
|
236
|
+
cliques and computational experiments",
|
|
237
|
+
*Theoretical Computer Science*, Volume 363, Issue 1,
|
|
238
|
+
Computing and Combinatorics,
|
|
239
|
+
10th Annual International Conference on
|
|
240
|
+
Computing and Combinatorics (COCOON 2004), 25 October 2006, Pages 28--42
|
|
241
|
+
<https://doi.org/10.1016/j.tcs.2006.06.015>
|
|
242
|
+
|
|
243
|
+
.. [3] F. Cazals, C. Karande,
|
|
244
|
+
"A note on the problem of reporting maximal cliques",
|
|
245
|
+
*Theoretical Computer Science*,
|
|
246
|
+
Volume 407, Issues 1--3, 6 November 2008, Pages 564--568,
|
|
247
|
+
<https://doi.org/10.1016/j.tcs.2008.05.010>
|
|
248
|
+
|
|
249
|
+
"""
|
|
250
|
+
if len(G) == 0:
|
|
251
|
+
return
|
|
252
|
+
|
|
253
|
+
adj = {u: {v for v in G[u] if v != u} for u in G}
|
|
254
|
+
|
|
255
|
+
# Initialize Q with the given nodes and subg, cand with their nbrs
|
|
256
|
+
Q = nodes[:] if nodes is not None else []
|
|
257
|
+
cand = set(G)
|
|
258
|
+
for node in Q:
|
|
259
|
+
if node not in cand:
|
|
260
|
+
raise ValueError(f"The given `nodes` {nodes} do not form a clique")
|
|
261
|
+
cand &= adj[node]
|
|
262
|
+
|
|
263
|
+
if not cand:
|
|
264
|
+
yield Q[:]
|
|
265
|
+
return
|
|
266
|
+
|
|
267
|
+
subg = cand.copy()
|
|
268
|
+
stack = []
|
|
269
|
+
Q.append(None)
|
|
270
|
+
|
|
271
|
+
u = max(subg, key=lambda u: len(cand & adj[u]))
|
|
272
|
+
ext_u = cand - adj[u]
|
|
273
|
+
|
|
274
|
+
try:
|
|
275
|
+
while True:
|
|
276
|
+
if ext_u:
|
|
277
|
+
q = ext_u.pop()
|
|
278
|
+
cand.remove(q)
|
|
279
|
+
Q[-1] = q
|
|
280
|
+
adj_q = adj[q]
|
|
281
|
+
subg_q = subg & adj_q
|
|
282
|
+
if not subg_q:
|
|
283
|
+
yield Q[:]
|
|
284
|
+
else:
|
|
285
|
+
cand_q = cand & adj_q
|
|
286
|
+
if cand_q:
|
|
287
|
+
stack.append((subg, cand, ext_u))
|
|
288
|
+
Q.append(None)
|
|
289
|
+
subg = subg_q
|
|
290
|
+
cand = cand_q
|
|
291
|
+
u = max(subg, key=lambda u: len(cand & adj[u]))
|
|
292
|
+
ext_u = cand - adj[u]
|
|
293
|
+
else:
|
|
294
|
+
Q.pop()
|
|
295
|
+
subg, cand, ext_u = stack.pop()
|
|
296
|
+
except IndexError:
|
|
297
|
+
pass
|
|
298
|
+
|
|
299
|
+
|
|
300
|
+
@not_implemented_for("directed")
|
|
301
|
+
@nx._dispatchable
|
|
302
|
+
def find_cliques_recursive(G, nodes=None):
|
|
303
|
+
"""Returns all maximal cliques in a graph.
|
|
304
|
+
|
|
305
|
+
For each node *v*, a *maximal clique for v* is a largest complete
|
|
306
|
+
subgraph containing *v*. The largest maximal clique is sometimes
|
|
307
|
+
called the *maximum clique*.
|
|
308
|
+
|
|
309
|
+
This function returns an iterator over cliques, each of which is a
|
|
310
|
+
list of nodes. It is a recursive implementation, so may suffer from
|
|
311
|
+
recursion depth issues, but is included for pedagogical reasons.
|
|
312
|
+
For a non-recursive implementation, see :func:`find_cliques`.
|
|
313
|
+
|
|
314
|
+
This function accepts a list of `nodes` and only the maximal cliques
|
|
315
|
+
containing all of these `nodes` are returned. It can considerably speed up
|
|
316
|
+
the running time if some specific cliques are desired.
|
|
317
|
+
|
|
318
|
+
Parameters
|
|
319
|
+
----------
|
|
320
|
+
G : NetworkX graph
|
|
321
|
+
An undirected graph.
|
|
322
|
+
|
|
323
|
+
nodes : list, optional (default=None)
|
|
324
|
+
If provided, only yield *maximal cliques* containing all nodes in `nodes`.
|
|
325
|
+
If `nodes` isn't a clique itself, a ValueError is raised.
|
|
326
|
+
|
|
327
|
+
Returns
|
|
328
|
+
-------
|
|
329
|
+
iterator
|
|
330
|
+
An iterator over maximal cliques, each of which is a list of
|
|
331
|
+
nodes in `G`. If `nodes` is provided, only the maximal cliques
|
|
332
|
+
containing all the nodes in `nodes` are yielded. The order of
|
|
333
|
+
cliques is arbitrary.
|
|
334
|
+
|
|
335
|
+
Raises
|
|
336
|
+
------
|
|
337
|
+
NetworkXNotImplemented
|
|
338
|
+
If `G` is directed.
|
|
339
|
+
|
|
340
|
+
ValueError
|
|
341
|
+
If `nodes` is not a clique.
|
|
342
|
+
|
|
343
|
+
See Also
|
|
344
|
+
--------
|
|
345
|
+
find_cliques
|
|
346
|
+
An iterative version of the same algorithm. See docstring for examples.
|
|
347
|
+
|
|
348
|
+
Notes
|
|
349
|
+
-----
|
|
350
|
+
To obtain a list of all maximal cliques, use
|
|
351
|
+
`list(find_cliques_recursive(G))`. However, be aware that in the
|
|
352
|
+
worst-case, the length of this list can be exponential in the number
|
|
353
|
+
of nodes in the graph. This function avoids storing all cliques in memory
|
|
354
|
+
by only keeping current candidate node lists in memory during its search.
|
|
355
|
+
|
|
356
|
+
This implementation is based on the algorithm published by Bron and
|
|
357
|
+
Kerbosch (1973) [1]_, as adapted by Tomita, Tanaka and Takahashi
|
|
358
|
+
(2006) [2]_ and discussed in Cazals and Karande (2008) [3]_. For a
|
|
359
|
+
non-recursive implementation, see :func:`find_cliques`.
|
|
360
|
+
|
|
361
|
+
This algorithm ignores self-loops and parallel edges, since cliques
|
|
362
|
+
are not conventionally defined with such edges.
|
|
363
|
+
|
|
364
|
+
References
|
|
365
|
+
----------
|
|
366
|
+
.. [1] Bron, C. and Kerbosch, J.
|
|
367
|
+
"Algorithm 457: finding all cliques of an undirected graph".
|
|
368
|
+
*Communications of the ACM* 16, 9 (Sep. 1973), 575--577.
|
|
369
|
+
<http://portal.acm.org/citation.cfm?doid=362342.362367>
|
|
370
|
+
|
|
371
|
+
.. [2] Etsuji Tomita, Akira Tanaka, Haruhisa Takahashi,
|
|
372
|
+
"The worst-case time complexity for generating all maximal
|
|
373
|
+
cliques and computational experiments",
|
|
374
|
+
*Theoretical Computer Science*, Volume 363, Issue 1,
|
|
375
|
+
Computing and Combinatorics,
|
|
376
|
+
10th Annual International Conference on
|
|
377
|
+
Computing and Combinatorics (COCOON 2004), 25 October 2006, Pages 28--42
|
|
378
|
+
<https://doi.org/10.1016/j.tcs.2006.06.015>
|
|
379
|
+
|
|
380
|
+
.. [3] F. Cazals, C. Karande,
|
|
381
|
+
"A note on the problem of reporting maximal cliques",
|
|
382
|
+
*Theoretical Computer Science*,
|
|
383
|
+
Volume 407, Issues 1--3, 6 November 2008, Pages 564--568,
|
|
384
|
+
<https://doi.org/10.1016/j.tcs.2008.05.010>
|
|
385
|
+
|
|
386
|
+
"""
|
|
387
|
+
if len(G) == 0:
|
|
388
|
+
return iter([])
|
|
389
|
+
|
|
390
|
+
adj = {u: {v for v in G[u] if v != u} for u in G}
|
|
391
|
+
|
|
392
|
+
# Initialize Q with the given nodes and subg, cand with their nbrs
|
|
393
|
+
Q = nodes[:] if nodes is not None else []
|
|
394
|
+
cand_init = set(G)
|
|
395
|
+
for node in Q:
|
|
396
|
+
if node not in cand_init:
|
|
397
|
+
raise ValueError(f"The given `nodes` {nodes} do not form a clique")
|
|
398
|
+
cand_init &= adj[node]
|
|
399
|
+
|
|
400
|
+
if not cand_init:
|
|
401
|
+
return iter([Q])
|
|
402
|
+
|
|
403
|
+
subg_init = cand_init.copy()
|
|
404
|
+
|
|
405
|
+
def expand(subg, cand):
|
|
406
|
+
u = max(subg, key=lambda u: len(cand & adj[u]))
|
|
407
|
+
for q in cand - adj[u]:
|
|
408
|
+
cand.remove(q)
|
|
409
|
+
Q.append(q)
|
|
410
|
+
adj_q = adj[q]
|
|
411
|
+
subg_q = subg & adj_q
|
|
412
|
+
if not subg_q:
|
|
413
|
+
yield Q[:]
|
|
414
|
+
else:
|
|
415
|
+
cand_q = cand & adj_q
|
|
416
|
+
if cand_q:
|
|
417
|
+
yield from expand(subg_q, cand_q)
|
|
418
|
+
Q.pop()
|
|
419
|
+
|
|
420
|
+
return expand(subg_init, cand_init)
|
|
421
|
+
|
|
422
|
+
|
|
423
|
+
@nx._dispatchable(returns_graph=True)
|
|
424
|
+
def make_max_clique_graph(G, create_using=None):
|
|
425
|
+
"""Returns the maximal clique graph of the given graph.
|
|
426
|
+
|
|
427
|
+
The nodes of the maximal clique graph of `G` are the cliques of
|
|
428
|
+
`G` and an edge joins two cliques if the cliques are not disjoint.
|
|
429
|
+
|
|
430
|
+
Parameters
|
|
431
|
+
----------
|
|
432
|
+
G : NetworkX graph
|
|
433
|
+
|
|
434
|
+
create_using : NetworkX graph constructor, optional (default=nx.Graph)
|
|
435
|
+
Graph type to create. If graph instance, then cleared before populated.
|
|
436
|
+
|
|
437
|
+
Returns
|
|
438
|
+
-------
|
|
439
|
+
NetworkX graph
|
|
440
|
+
A graph whose nodes are the cliques of `G` and whose edges
|
|
441
|
+
join two cliques if they are not disjoint.
|
|
442
|
+
|
|
443
|
+
Notes
|
|
444
|
+
-----
|
|
445
|
+
This function behaves like the following code::
|
|
446
|
+
|
|
447
|
+
import networkx as nx
|
|
448
|
+
|
|
449
|
+
G = nx.make_clique_bipartite(G)
|
|
450
|
+
cliques = [v for v in G.nodes() if G.nodes[v]["bipartite"] == 0]
|
|
451
|
+
G = nx.bipartite.projected_graph(G, cliques)
|
|
452
|
+
G = nx.relabel_nodes(G, {-v: v - 1 for v in G})
|
|
453
|
+
|
|
454
|
+
It should be faster, though, since it skips all the intermediate
|
|
455
|
+
steps.
|
|
456
|
+
|
|
457
|
+
"""
|
|
458
|
+
if create_using is None:
|
|
459
|
+
B = G.__class__()
|
|
460
|
+
else:
|
|
461
|
+
B = nx.empty_graph(0, create_using)
|
|
462
|
+
cliques = list(enumerate(set(c) for c in find_cliques(G)))
|
|
463
|
+
# Add a numbered node for each clique.
|
|
464
|
+
B.add_nodes_from(i for i, c in cliques)
|
|
465
|
+
# Join cliques by an edge if they share a node.
|
|
466
|
+
clique_pairs = combinations(cliques, 2)
|
|
467
|
+
B.add_edges_from((i, j) for (i, c1), (j, c2) in clique_pairs if c1 & c2)
|
|
468
|
+
return B
|
|
469
|
+
|
|
470
|
+
|
|
471
|
+
@nx._dispatchable(returns_graph=True)
|
|
472
|
+
def make_clique_bipartite(G, fpos=None, create_using=None, name=None):
|
|
473
|
+
"""Returns the bipartite clique graph corresponding to `G`.
|
|
474
|
+
|
|
475
|
+
In the returned bipartite graph, the "bottom" nodes are the nodes of
|
|
476
|
+
`G` and the "top" nodes represent the maximal cliques of `G`.
|
|
477
|
+
There is an edge from node *v* to clique *C* in the returned graph
|
|
478
|
+
if and only if *v* is an element of *C*.
|
|
479
|
+
|
|
480
|
+
Parameters
|
|
481
|
+
----------
|
|
482
|
+
G : NetworkX graph
|
|
483
|
+
An undirected graph.
|
|
484
|
+
|
|
485
|
+
fpos : bool
|
|
486
|
+
If True or not None, the returned graph will have an
|
|
487
|
+
additional attribute, `pos`, a dictionary mapping node to
|
|
488
|
+
position in the Euclidean plane.
|
|
489
|
+
|
|
490
|
+
create_using : NetworkX graph constructor, optional (default=nx.Graph)
|
|
491
|
+
Graph type to create. If graph instance, then cleared before populated.
|
|
492
|
+
|
|
493
|
+
Returns
|
|
494
|
+
-------
|
|
495
|
+
NetworkX graph
|
|
496
|
+
A bipartite graph whose "bottom" set is the nodes of the graph
|
|
497
|
+
`G`, whose "top" set is the cliques of `G`, and whose edges
|
|
498
|
+
join nodes of `G` to the cliques that contain them.
|
|
499
|
+
|
|
500
|
+
The nodes of the graph `G` have the node attribute
|
|
501
|
+
'bipartite' set to 1 and the nodes representing cliques
|
|
502
|
+
have the node attribute 'bipartite' set to 0, as is the
|
|
503
|
+
convention for bipartite graphs in NetworkX.
|
|
504
|
+
|
|
505
|
+
"""
|
|
506
|
+
B = nx.empty_graph(0, create_using)
|
|
507
|
+
B.clear()
|
|
508
|
+
# The "bottom" nodes in the bipartite graph are the nodes of the
|
|
509
|
+
# original graph, G.
|
|
510
|
+
B.add_nodes_from(G, bipartite=1)
|
|
511
|
+
for i, cl in enumerate(find_cliques(G)):
|
|
512
|
+
# The "top" nodes in the bipartite graph are the cliques. These
|
|
513
|
+
# nodes get negative numbers as labels.
|
|
514
|
+
name = -i - 1
|
|
515
|
+
B.add_node(name, bipartite=0)
|
|
516
|
+
B.add_edges_from((v, name) for v in cl)
|
|
517
|
+
return B
|
|
518
|
+
|
|
519
|
+
|
|
520
|
+
@nx._dispatchable
|
|
521
|
+
def node_clique_number(G, nodes=None, cliques=None, separate_nodes=False):
|
|
522
|
+
"""Returns the size of the largest maximal clique containing each given node.
|
|
523
|
+
|
|
524
|
+
Returns a single or list depending on input nodes.
|
|
525
|
+
An optional list of cliques can be input if already computed.
|
|
526
|
+
|
|
527
|
+
Parameters
|
|
528
|
+
----------
|
|
529
|
+
G : NetworkX graph
|
|
530
|
+
An undirected graph.
|
|
531
|
+
|
|
532
|
+
cliques : list, optional (default=None)
|
|
533
|
+
A list of cliques, each of which is itself a list of nodes.
|
|
534
|
+
If not specified, the list of all cliques will be computed
|
|
535
|
+
using :func:`find_cliques`.
|
|
536
|
+
|
|
537
|
+
Returns
|
|
538
|
+
-------
|
|
539
|
+
int or dict
|
|
540
|
+
If `nodes` is a single node, returns the size of the
|
|
541
|
+
largest maximal clique in `G` containing that node.
|
|
542
|
+
Otherwise return a dict keyed by node to the size
|
|
543
|
+
of the largest maximal clique containing that node.
|
|
544
|
+
|
|
545
|
+
See Also
|
|
546
|
+
--------
|
|
547
|
+
find_cliques
|
|
548
|
+
find_cliques yields the maximal cliques of G.
|
|
549
|
+
It accepts a `nodes` argument which restricts consideration to
|
|
550
|
+
maximal cliques containing all the given `nodes`.
|
|
551
|
+
The search for the cliques is optimized for `nodes`.
|
|
552
|
+
number_of_cliques
|
|
553
|
+
"""
|
|
554
|
+
if cliques is None:
|
|
555
|
+
if nodes is not None:
|
|
556
|
+
# Use ego_graph to decrease size of graph
|
|
557
|
+
# check for single node
|
|
558
|
+
if nodes in G:
|
|
559
|
+
return max(len(c) for c in find_cliques(nx.ego_graph(G, nodes)))
|
|
560
|
+
# handle multiple nodes
|
|
561
|
+
return {
|
|
562
|
+
n: max(len(c) for c in find_cliques(nx.ego_graph(G, n))) for n in nodes
|
|
563
|
+
}
|
|
564
|
+
|
|
565
|
+
# nodes is None--find all cliques
|
|
566
|
+
cliques = list(find_cliques(G))
|
|
567
|
+
|
|
568
|
+
# single node requested
|
|
569
|
+
if nodes in G:
|
|
570
|
+
return max(len(c) for c in cliques if nodes in c)
|
|
571
|
+
|
|
572
|
+
# multiple nodes requested
|
|
573
|
+
# preprocess all nodes (faster than one at a time for even 2 nodes)
|
|
574
|
+
size_for_n = defaultdict(int)
|
|
575
|
+
for c in cliques:
|
|
576
|
+
size_of_c = len(c)
|
|
577
|
+
for n in c:
|
|
578
|
+
if size_for_n[n] < size_of_c:
|
|
579
|
+
size_for_n[n] = size_of_c
|
|
580
|
+
if nodes is None:
|
|
581
|
+
return size_for_n
|
|
582
|
+
return {n: size_for_n[n] for n in nodes}
|
|
583
|
+
|
|
584
|
+
|
|
585
|
+
def number_of_cliques(G, nodes=None, cliques=None):
|
|
586
|
+
"""Return the number of maximal cliques each node is part of.
|
|
587
|
+
|
|
588
|
+
Output is a single value or dict depending on `nodes`.
|
|
589
|
+
Optional list of cliques can be input if already computed.
|
|
590
|
+
|
|
591
|
+
Parameters
|
|
592
|
+
----------
|
|
593
|
+
G : NetworkX graph
|
|
594
|
+
An undirected graph.
|
|
595
|
+
|
|
596
|
+
nodes : list or None, optional (default=None)
|
|
597
|
+
A list of nodes to return the number of maximal cliques for.
|
|
598
|
+
If `None`, return the number of maximal cliques for all nodes.
|
|
599
|
+
|
|
600
|
+
cliques : list or None, optional (default=None)
|
|
601
|
+
A precomputed list of maximal cliques to use for the calculation.
|
|
602
|
+
|
|
603
|
+
Returns
|
|
604
|
+
-------
|
|
605
|
+
int or dict
|
|
606
|
+
If `nodes` is a single node, return the number of maximal cliques it is
|
|
607
|
+
part of. If `nodes` is a list, return a dictionary keyed by node to the
|
|
608
|
+
number of maximal cliques it is part of.
|
|
609
|
+
|
|
610
|
+
Raises
|
|
611
|
+
------
|
|
612
|
+
NetworkXNotImplemented
|
|
613
|
+
If `G` is directed.
|
|
614
|
+
|
|
615
|
+
See Also
|
|
616
|
+
--------
|
|
617
|
+
find_cliques
|
|
618
|
+
node_clique_number
|
|
619
|
+
|
|
620
|
+
Examples
|
|
621
|
+
--------
|
|
622
|
+
Compute the number of maximal cliques a node is part of:
|
|
623
|
+
|
|
624
|
+
>>> G = nx.complete_graph(3)
|
|
625
|
+
>>> nx.add_cycle(G, [0, 3, 4])
|
|
626
|
+
>>> nx.number_of_cliques(G, nodes=0)
|
|
627
|
+
2
|
|
628
|
+
>>> nx.number_of_cliques(G, nodes=1)
|
|
629
|
+
1
|
|
630
|
+
|
|
631
|
+
Or, for a list of nodes:
|
|
632
|
+
|
|
633
|
+
>>> nx.number_of_cliques(G, nodes=[0, 1])
|
|
634
|
+
{0: 2, 1: 1}
|
|
635
|
+
|
|
636
|
+
If no explicit `nodes` are provided, all nodes are considered:
|
|
637
|
+
|
|
638
|
+
>>> nx.number_of_cliques(G)
|
|
639
|
+
{0: 2, 1: 1, 2: 1, 3: 1, 4: 1}
|
|
640
|
+
|
|
641
|
+
The list of maximal cliques can also be precomputed:
|
|
642
|
+
|
|
643
|
+
>>> cl = list(nx.find_cliques(G))
|
|
644
|
+
>>> nx.number_of_cliques(G, cliques=cl)
|
|
645
|
+
{0: 2, 1: 1, 2: 1, 3: 1, 4: 1}
|
|
646
|
+
"""
|
|
647
|
+
if cliques is None:
|
|
648
|
+
cliques = find_cliques(G)
|
|
649
|
+
|
|
650
|
+
if nodes is None:
|
|
651
|
+
nodes = list(G.nodes()) # none, get entire graph
|
|
652
|
+
|
|
653
|
+
if not isinstance(nodes, list): # check for a list
|
|
654
|
+
v = nodes
|
|
655
|
+
# assume it is a single value
|
|
656
|
+
numcliq = sum(1 for c in cliques if v in c)
|
|
657
|
+
else:
|
|
658
|
+
numcliq = Counter(chain.from_iterable(cliques))
|
|
659
|
+
numcliq = {v: numcliq[v] for v in nodes} # return a dict
|
|
660
|
+
return numcliq
|
|
661
|
+
|
|
662
|
+
|
|
663
|
+
class MaxWeightClique:
|
|
664
|
+
"""A class for the maximum weight clique algorithm.
|
|
665
|
+
|
|
666
|
+
This class is a helper for the `max_weight_clique` function. The class
|
|
667
|
+
should not normally be used directly.
|
|
668
|
+
|
|
669
|
+
Parameters
|
|
670
|
+
----------
|
|
671
|
+
G : NetworkX graph
|
|
672
|
+
The undirected graph for which a maximum weight clique is sought
|
|
673
|
+
weight : string or None, optional (default='weight')
|
|
674
|
+
The node attribute that holds the integer value used as a weight.
|
|
675
|
+
If None, then each node has weight 1.
|
|
676
|
+
|
|
677
|
+
Attributes
|
|
678
|
+
----------
|
|
679
|
+
G : NetworkX graph
|
|
680
|
+
The undirected graph for which a maximum weight clique is sought
|
|
681
|
+
node_weights: dict
|
|
682
|
+
The weight of each node
|
|
683
|
+
incumbent_nodes : list
|
|
684
|
+
The nodes of the incumbent clique (the best clique found so far)
|
|
685
|
+
incumbent_weight: int
|
|
686
|
+
The weight of the incumbent clique
|
|
687
|
+
"""
|
|
688
|
+
|
|
689
|
+
def __init__(self, G, weight):
|
|
690
|
+
self.G = G
|
|
691
|
+
self.incumbent_nodes = []
|
|
692
|
+
self.incumbent_weight = 0
|
|
693
|
+
|
|
694
|
+
if weight is None:
|
|
695
|
+
self.node_weights = {v: 1 for v in G.nodes()}
|
|
696
|
+
else:
|
|
697
|
+
for v in G.nodes():
|
|
698
|
+
if weight not in G.nodes[v]:
|
|
699
|
+
errmsg = f"Node {v!r} does not have the requested weight field."
|
|
700
|
+
raise KeyError(errmsg)
|
|
701
|
+
if not isinstance(G.nodes[v][weight], int):
|
|
702
|
+
errmsg = f"The {weight!r} field of node {v!r} is not an integer."
|
|
703
|
+
raise ValueError(errmsg)
|
|
704
|
+
self.node_weights = {v: G.nodes[v][weight] for v in G.nodes()}
|
|
705
|
+
|
|
706
|
+
def update_incumbent_if_improved(self, C, C_weight):
|
|
707
|
+
"""Update the incumbent if the node set C has greater weight.
|
|
708
|
+
|
|
709
|
+
C is assumed to be a clique.
|
|
710
|
+
"""
|
|
711
|
+
if C_weight > self.incumbent_weight:
|
|
712
|
+
self.incumbent_nodes = C[:]
|
|
713
|
+
self.incumbent_weight = C_weight
|
|
714
|
+
|
|
715
|
+
def greedily_find_independent_set(self, P):
|
|
716
|
+
"""Greedily find an independent set of nodes from a set of
|
|
717
|
+
nodes P."""
|
|
718
|
+
independent_set = []
|
|
719
|
+
P = P[:]
|
|
720
|
+
while P:
|
|
721
|
+
v = P[0]
|
|
722
|
+
independent_set.append(v)
|
|
723
|
+
P = [w for w in P if v != w and not self.G.has_edge(v, w)]
|
|
724
|
+
return independent_set
|
|
725
|
+
|
|
726
|
+
def find_branching_nodes(self, P, target):
|
|
727
|
+
"""Find a set of nodes to branch on."""
|
|
728
|
+
residual_wt = {v: self.node_weights[v] for v in P}
|
|
729
|
+
total_wt = 0
|
|
730
|
+
P = P[:]
|
|
731
|
+
while P:
|
|
732
|
+
independent_set = self.greedily_find_independent_set(P)
|
|
733
|
+
min_wt_in_class = min(residual_wt[v] for v in independent_set)
|
|
734
|
+
total_wt += min_wt_in_class
|
|
735
|
+
if total_wt > target:
|
|
736
|
+
break
|
|
737
|
+
for v in independent_set:
|
|
738
|
+
residual_wt[v] -= min_wt_in_class
|
|
739
|
+
P = [v for v in P if residual_wt[v] != 0]
|
|
740
|
+
return P
|
|
741
|
+
|
|
742
|
+
def expand(self, C, C_weight, P):
|
|
743
|
+
"""Look for the best clique that contains all the nodes in C and zero or
|
|
744
|
+
more of the nodes in P, backtracking if it can be shown that no such
|
|
745
|
+
clique has greater weight than the incumbent.
|
|
746
|
+
"""
|
|
747
|
+
self.update_incumbent_if_improved(C, C_weight)
|
|
748
|
+
branching_nodes = self.find_branching_nodes(P, self.incumbent_weight - C_weight)
|
|
749
|
+
while branching_nodes:
|
|
750
|
+
v = branching_nodes.pop()
|
|
751
|
+
P.remove(v)
|
|
752
|
+
new_C = C + [v]
|
|
753
|
+
new_C_weight = C_weight + self.node_weights[v]
|
|
754
|
+
new_P = [w for w in P if self.G.has_edge(v, w)]
|
|
755
|
+
self.expand(new_C, new_C_weight, new_P)
|
|
756
|
+
|
|
757
|
+
def find_max_weight_clique(self):
|
|
758
|
+
"""Find a maximum weight clique."""
|
|
759
|
+
# Sort nodes in reverse order of degree for speed
|
|
760
|
+
nodes = sorted(self.G.nodes(), key=lambda v: self.G.degree(v), reverse=True)
|
|
761
|
+
nodes = [v for v in nodes if self.node_weights[v] > 0]
|
|
762
|
+
self.expand([], 0, nodes)
|
|
763
|
+
|
|
764
|
+
|
|
765
|
+
@not_implemented_for("directed")
|
|
766
|
+
@nx._dispatchable(node_attrs="weight")
|
|
767
|
+
def max_weight_clique(G, weight="weight"):
|
|
768
|
+
"""Find a maximum weight clique in G.
|
|
769
|
+
|
|
770
|
+
A *clique* in a graph is a set of nodes such that every two distinct nodes
|
|
771
|
+
are adjacent. The *weight* of a clique is the sum of the weights of its
|
|
772
|
+
nodes. A *maximum weight clique* of graph G is a clique C in G such that
|
|
773
|
+
no clique in G has weight greater than the weight of C.
|
|
774
|
+
|
|
775
|
+
Parameters
|
|
776
|
+
----------
|
|
777
|
+
G : NetworkX graph
|
|
778
|
+
Undirected graph
|
|
779
|
+
weight : string or None, optional (default='weight')
|
|
780
|
+
The node attribute that holds the integer value used as a weight.
|
|
781
|
+
If None, then each node has weight 1.
|
|
782
|
+
|
|
783
|
+
Returns
|
|
784
|
+
-------
|
|
785
|
+
clique : list
|
|
786
|
+
the nodes of a maximum weight clique
|
|
787
|
+
weight : int
|
|
788
|
+
the weight of a maximum weight clique
|
|
789
|
+
|
|
790
|
+
Notes
|
|
791
|
+
-----
|
|
792
|
+
The implementation is recursive, and therefore it may run into recursion
|
|
793
|
+
depth issues if G contains a clique whose number of nodes is close to the
|
|
794
|
+
recursion depth limit.
|
|
795
|
+
|
|
796
|
+
At each search node, the algorithm greedily constructs a weighted
|
|
797
|
+
independent set cover of part of the graph in order to find a small set of
|
|
798
|
+
nodes on which to branch. The algorithm is very similar to the algorithm
|
|
799
|
+
of Tavares et al. [1]_, other than the fact that the NetworkX version does
|
|
800
|
+
not use bitsets. This style of algorithm for maximum weight clique (and
|
|
801
|
+
maximum weight independent set, which is the same problem but on the
|
|
802
|
+
complement graph) has a decades-long history. See Algorithm B of Warren
|
|
803
|
+
and Hicks [2]_ and the references in that paper.
|
|
804
|
+
|
|
805
|
+
References
|
|
806
|
+
----------
|
|
807
|
+
.. [1] Tavares, W.A., Neto, M.B.C., Rodrigues, C.D., Michelon, P.: Um
|
|
808
|
+
algoritmo de branch and bound para o problema da clique máxima
|
|
809
|
+
ponderada. Proceedings of XLVII SBPO 1 (2015).
|
|
810
|
+
|
|
811
|
+
.. [2] Warren, Jeffrey S, Hicks, Illya V.: Combinatorial Branch-and-Bound
|
|
812
|
+
for the Maximum Weight Independent Set Problem. Technical Report,
|
|
813
|
+
Texas A&M University (2016).
|
|
814
|
+
"""
|
|
815
|
+
|
|
816
|
+
mwc = MaxWeightClique(G, weight)
|
|
817
|
+
mwc.find_max_weight_clique()
|
|
818
|
+
return mwc.incumbent_nodes, mwc.incumbent_weight
|