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.
Files changed (649) hide show
  1. package/package.json +1 -1
  2. package/runtime/BUILD.json +2 -2
  3. package/runtime/prompts/lead/okstra-lead-contract.md +1 -1
  4. package/runtime/prompts/profiles/_common-contract.md +3 -2
  5. package/runtime/python/okstra_ctl/graphify_cmd.py +225 -0
  6. package/runtime/python/okstra_ctl/resolve_task_key.py +15 -9
  7. package/runtime/python/okstra_ctl/session.py +44 -0
  8. package/runtime/python/okstra_project/__init__.py +2 -0
  9. package/runtime/python/okstra_project/state.py +36 -0
  10. package/runtime/python/okstra_token_usage/claude.py +15 -9
  11. package/runtime/python/okstra_token_usage/cli.py +23 -0
  12. package/runtime/python/okstra_token_usage/collect.py +163 -4
  13. package/runtime/python/okstra_vendor/__init__.py +41 -0
  14. package/runtime/python/okstra_vendor/graphify/.vendored-version +1 -0
  15. package/runtime/python/okstra_vendor/graphify/__init__.py +28 -0
  16. package/runtime/python/okstra_vendor/graphify/__main__.py +1371 -0
  17. package/runtime/python/okstra_vendor/graphify/analyze.py +540 -0
  18. package/runtime/python/okstra_vendor/graphify/benchmark.py +129 -0
  19. package/runtime/python/okstra_vendor/graphify/build.py +107 -0
  20. package/runtime/python/okstra_vendor/graphify/cache.py +169 -0
  21. package/runtime/python/okstra_vendor/graphify/cluster.py +137 -0
  22. package/runtime/python/okstra_vendor/graphify/detect.py +510 -0
  23. package/runtime/python/okstra_vendor/graphify/export.py +1014 -0
  24. package/runtime/python/okstra_vendor/graphify/extract.py +3277 -0
  25. package/runtime/python/okstra_vendor/graphify/hooks.py +220 -0
  26. package/runtime/python/okstra_vendor/graphify/ingest.py +297 -0
  27. package/runtime/python/okstra_vendor/graphify/manifest.py +4 -0
  28. package/runtime/python/okstra_vendor/graphify/report.py +175 -0
  29. package/runtime/python/okstra_vendor/graphify/security.py +203 -0
  30. package/runtime/python/okstra_vendor/graphify/serve.py +373 -0
  31. package/runtime/python/okstra_vendor/graphify/skill-aider.md +1184 -0
  32. package/runtime/python/okstra_vendor/graphify/skill-claw.md +1184 -0
  33. package/runtime/python/okstra_vendor/graphify/skill-codex.md +1242 -0
  34. package/runtime/python/okstra_vendor/graphify/skill-copilot.md +1268 -0
  35. package/runtime/python/okstra_vendor/graphify/skill-droid.md +1239 -0
  36. package/runtime/python/okstra_vendor/graphify/skill-kiro.md +1183 -0
  37. package/runtime/python/okstra_vendor/graphify/skill-opencode.md +1238 -0
  38. package/runtime/python/okstra_vendor/graphify/skill-trae.md +1208 -0
  39. package/runtime/python/okstra_vendor/graphify/skill-vscode.md +253 -0
  40. package/runtime/python/okstra_vendor/graphify/skill-windows.md +1245 -0
  41. package/runtime/python/okstra_vendor/graphify/skill.md +1319 -0
  42. package/runtime/python/okstra_vendor/graphify/transcribe.py +182 -0
  43. package/runtime/python/okstra_vendor/graphify/validate.py +72 -0
  44. package/runtime/python/okstra_vendor/graphify/watch.py +188 -0
  45. package/runtime/python/okstra_vendor/graphify/wiki.py +214 -0
  46. package/runtime/python/okstra_vendor/networkx/__init__.py +62 -0
  47. package/runtime/python/okstra_vendor/networkx/algorithms/__init__.py +134 -0
  48. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/__init__.py +26 -0
  49. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/clique.py +259 -0
  50. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/clustering_coefficient.py +71 -0
  51. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/connectivity.py +412 -0
  52. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/density.py +396 -0
  53. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/distance_measures.py +150 -0
  54. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/dominating_set.py +149 -0
  55. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/kcomponents.py +369 -0
  56. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/matching.py +44 -0
  57. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/maxcut.py +143 -0
  58. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/ramsey.py +53 -0
  59. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/steinertree.py +265 -0
  60. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/__init__.py +0 -0
  61. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_approx_clust_coeff.py +41 -0
  62. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_clique.py +112 -0
  63. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_connectivity.py +199 -0
  64. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_density.py +146 -0
  65. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_distance_measures.py +59 -0
  66. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_dominating_set.py +78 -0
  67. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_kcomponents.py +303 -0
  68. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_matching.py +8 -0
  69. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_maxcut.py +94 -0
  70. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_ramsey.py +31 -0
  71. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_steinertree.py +306 -0
  72. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_traveling_salesman.py +1014 -0
  73. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_treewidth.py +274 -0
  74. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/tests/test_vertex_cover.py +68 -0
  75. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/traveling_salesman.py +1508 -0
  76. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/treewidth.py +255 -0
  77. package/runtime/python/okstra_vendor/networkx/algorithms/approximation/vertex_cover.py +83 -0
  78. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/__init__.py +5 -0
  79. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/connectivity.py +122 -0
  80. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/correlation.py +302 -0
  81. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/mixing.py +255 -0
  82. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/neighbor_degree.py +160 -0
  83. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/pairs.py +127 -0
  84. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/__init__.py +0 -0
  85. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/base_test.py +81 -0
  86. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/test_connectivity.py +143 -0
  87. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/test_correlation.py +122 -0
  88. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/test_mixing.py +174 -0
  89. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/test_neighbor_degree.py +107 -0
  90. package/runtime/python/okstra_vendor/networkx/algorithms/assortativity/tests/test_pairs.py +87 -0
  91. package/runtime/python/okstra_vendor/networkx/algorithms/asteroidal.py +164 -0
  92. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/__init__.py +88 -0
  93. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/basic.py +322 -0
  94. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/centrality.py +290 -0
  95. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/cluster.py +289 -0
  96. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/covering.py +57 -0
  97. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/edgelist.py +360 -0
  98. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/extendability.py +105 -0
  99. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/generators.py +603 -0
  100. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/link_analysis.py +316 -0
  101. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/matching.py +590 -0
  102. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/matrix.py +232 -0
  103. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/projection.py +526 -0
  104. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/redundancy.py +112 -0
  105. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/spectral.py +69 -0
  106. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/__init__.py +0 -0
  107. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_basic.py +125 -0
  108. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_centrality.py +192 -0
  109. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_cluster.py +84 -0
  110. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_covering.py +33 -0
  111. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_edgelist.py +240 -0
  112. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_extendability.py +334 -0
  113. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_generators.py +407 -0
  114. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_link_analysis.py +218 -0
  115. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_matching.py +327 -0
  116. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_matrix.py +138 -0
  117. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_project.py +409 -0
  118. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_redundancy.py +35 -0
  119. package/runtime/python/okstra_vendor/networkx/algorithms/bipartite/tests/test_spectral_bipartivity.py +80 -0
  120. package/runtime/python/okstra_vendor/networkx/algorithms/boundary.py +168 -0
  121. package/runtime/python/okstra_vendor/networkx/algorithms/bridges.py +205 -0
  122. package/runtime/python/okstra_vendor/networkx/algorithms/broadcasting.py +164 -0
  123. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/__init__.py +20 -0
  124. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/betweenness.py +591 -0
  125. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/betweenness_subset.py +236 -0
  126. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/closeness.py +282 -0
  127. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/current_flow_betweenness.py +364 -0
  128. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/current_flow_betweenness_subset.py +227 -0
  129. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/current_flow_closeness.py +96 -0
  130. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/degree_alg.py +150 -0
  131. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/dispersion.py +107 -0
  132. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/eigenvector.py +357 -0
  133. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/flow_matrix.py +130 -0
  134. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/group.py +787 -0
  135. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/harmonic.py +88 -0
  136. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/katz.py +331 -0
  137. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/laplacian.py +150 -0
  138. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/load.py +200 -0
  139. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/percolation.py +128 -0
  140. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/reaching.py +209 -0
  141. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/second_order.py +141 -0
  142. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/subgraph_alg.py +361 -0
  143. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/__init__.py +0 -0
  144. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_betweenness_centrality.py +923 -0
  145. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_betweenness_centrality_subset.py +354 -0
  146. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_closeness_centrality.py +274 -0
  147. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_current_flow_betweenness_centrality.py +259 -0
  148. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_current_flow_betweenness_centrality_subset.py +147 -0
  149. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_current_flow_closeness.py +43 -0
  150. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_degree_centrality.py +144 -0
  151. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_dispersion.py +73 -0
  152. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_eigenvector_centrality.py +186 -0
  153. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_group.py +277 -0
  154. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_harmonic_centrality.py +122 -0
  155. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_katz_centrality.py +345 -0
  156. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_laplacian_centrality.py +220 -0
  157. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_load_centrality.py +344 -0
  158. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_percolation_centrality.py +87 -0
  159. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_reaching.py +140 -0
  160. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_second_order_centrality.py +82 -0
  161. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_subgraph.py +110 -0
  162. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_trophic.py +302 -0
  163. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/tests/test_voterank.py +64 -0
  164. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/trophic.py +181 -0
  165. package/runtime/python/okstra_vendor/networkx/algorithms/centrality/voterank_alg.py +95 -0
  166. package/runtime/python/okstra_vendor/networkx/algorithms/chains.py +172 -0
  167. package/runtime/python/okstra_vendor/networkx/algorithms/chordal.py +443 -0
  168. package/runtime/python/okstra_vendor/networkx/algorithms/clique.py +818 -0
  169. package/runtime/python/okstra_vendor/networkx/algorithms/cluster.py +732 -0
  170. package/runtime/python/okstra_vendor/networkx/algorithms/coloring/__init__.py +4 -0
  171. package/runtime/python/okstra_vendor/networkx/algorithms/coloring/equitable_coloring.py +505 -0
  172. package/runtime/python/okstra_vendor/networkx/algorithms/coloring/greedy_coloring.py +565 -0
  173. package/runtime/python/okstra_vendor/networkx/algorithms/coloring/tests/__init__.py +0 -0
  174. package/runtime/python/okstra_vendor/networkx/algorithms/coloring/tests/test_coloring.py +863 -0
  175. package/runtime/python/okstra_vendor/networkx/algorithms/communicability_alg.py +163 -0
  176. package/runtime/python/okstra_vendor/networkx/algorithms/community/__init__.py +28 -0
  177. package/runtime/python/okstra_vendor/networkx/algorithms/community/asyn_fluid.py +153 -0
  178. package/runtime/python/okstra_vendor/networkx/algorithms/community/bipartitions.py +354 -0
  179. package/runtime/python/okstra_vendor/networkx/algorithms/community/centrality.py +171 -0
  180. package/runtime/python/okstra_vendor/networkx/algorithms/community/community_utils.py +30 -0
  181. package/runtime/python/okstra_vendor/networkx/algorithms/community/divisive.py +216 -0
  182. package/runtime/python/okstra_vendor/networkx/algorithms/community/kclique.py +79 -0
  183. package/runtime/python/okstra_vendor/networkx/algorithms/community/label_propagation.py +338 -0
  184. package/runtime/python/okstra_vendor/networkx/algorithms/community/leiden.py +162 -0
  185. package/runtime/python/okstra_vendor/networkx/algorithms/community/local.py +220 -0
  186. package/runtime/python/okstra_vendor/networkx/algorithms/community/louvain.py +384 -0
  187. package/runtime/python/okstra_vendor/networkx/algorithms/community/lukes.py +227 -0
  188. package/runtime/python/okstra_vendor/networkx/algorithms/community/modularity_max.py +452 -0
  189. package/runtime/python/okstra_vendor/networkx/algorithms/community/quality.py +347 -0
  190. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/__init__.py +0 -0
  191. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_asyn_fluid.py +147 -0
  192. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_bipartitions.py +157 -0
  193. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_centrality.py +85 -0
  194. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_divisive.py +106 -0
  195. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_kclique.py +91 -0
  196. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_label_propagation.py +241 -0
  197. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_leiden.py +138 -0
  198. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_local.py +76 -0
  199. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_louvain.py +264 -0
  200. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_lukes.py +152 -0
  201. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_modularity_max.py +340 -0
  202. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_quality.py +139 -0
  203. package/runtime/python/okstra_vendor/networkx/algorithms/community/tests/test_utils.py +26 -0
  204. package/runtime/python/okstra_vendor/networkx/algorithms/components/__init__.py +6 -0
  205. package/runtime/python/okstra_vendor/networkx/algorithms/components/attracting.py +115 -0
  206. package/runtime/python/okstra_vendor/networkx/algorithms/components/biconnected.py +394 -0
  207. package/runtime/python/okstra_vendor/networkx/algorithms/components/connected.py +282 -0
  208. package/runtime/python/okstra_vendor/networkx/algorithms/components/semiconnected.py +71 -0
  209. package/runtime/python/okstra_vendor/networkx/algorithms/components/strongly_connected.py +359 -0
  210. package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/__init__.py +0 -0
  211. package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_attracting.py +70 -0
  212. package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_biconnected.py +248 -0
  213. package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_connected.py +138 -0
  214. package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_semiconnected.py +55 -0
  215. package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_strongly_connected.py +193 -0
  216. package/runtime/python/okstra_vendor/networkx/algorithms/components/tests/test_weakly_connected.py +96 -0
  217. package/runtime/python/okstra_vendor/networkx/algorithms/components/weakly_connected.py +196 -0
  218. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/__init__.py +11 -0
  219. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/connectivity.py +811 -0
  220. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/cuts.py +616 -0
  221. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/disjoint_paths.py +408 -0
  222. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/edge_augmentation.py +1270 -0
  223. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/edge_kcomponents.py +592 -0
  224. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/kcomponents.py +220 -0
  225. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/kcutsets.py +235 -0
  226. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/stoerwagner.py +152 -0
  227. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/__init__.py +0 -0
  228. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_connectivity.py +421 -0
  229. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_cuts.py +309 -0
  230. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_disjoint_paths.py +249 -0
  231. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_edge_augmentation.py +502 -0
  232. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_edge_kcomponents.py +488 -0
  233. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_kcomponents.py +323 -0
  234. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_kcutsets.py +280 -0
  235. package/runtime/python/okstra_vendor/networkx/algorithms/connectivity/tests/test_stoer_wagner.py +102 -0
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@@ -0,0 +1,1042 @@
1
+ """
2
+ Algorithms for finding optimum branchings and spanning arborescences.
3
+
4
+ This implementation is based on:
5
+
6
+ J. Edmonds, Optimum branchings, J. Res. Natl. Bur. Standards 71B (1967),
7
+ 233–240. URL: http://archive.org/details/jresv71Bn4p233
8
+
9
+ """
10
+
11
+ # TODO: Implement method from Gabow, Galil, Spence and Tarjan:
12
+ #
13
+ # @article{
14
+ # year={1986},
15
+ # issn={0209-9683},
16
+ # journal={Combinatorica},
17
+ # volume={6},
18
+ # number={2},
19
+ # doi={10.1007/BF02579168},
20
+ # title={Efficient algorithms for finding minimum spanning trees in
21
+ # undirected and directed graphs},
22
+ # url={https://doi.org/10.1007/BF02579168},
23
+ # publisher={Springer-Verlag},
24
+ # keywords={68 B 15; 68 C 05},
25
+ # author={Gabow, Harold N. and Galil, Zvi and Spencer, Thomas and Tarjan,
26
+ # Robert E.},
27
+ # pages={109-122},
28
+ # language={English}
29
+ # }
30
+ import string
31
+ from dataclasses import dataclass, field
32
+ from operator import itemgetter
33
+ from queue import PriorityQueue
34
+
35
+ import networkx as nx
36
+ from networkx.utils import py_random_state
37
+
38
+ from .recognition import is_arborescence, is_branching
39
+
40
+ __all__ = [
41
+ "branching_weight",
42
+ "greedy_branching",
43
+ "maximum_branching",
44
+ "minimum_branching",
45
+ "minimal_branching",
46
+ "maximum_spanning_arborescence",
47
+ "minimum_spanning_arborescence",
48
+ "ArborescenceIterator",
49
+ ]
50
+
51
+ KINDS = {"max", "min"}
52
+
53
+ STYLES = {
54
+ "branching": "branching",
55
+ "arborescence": "arborescence",
56
+ "spanning arborescence": "arborescence",
57
+ }
58
+
59
+ INF = float("inf")
60
+
61
+
62
+ @py_random_state(1)
63
+ def random_string(L=15, seed=None):
64
+ return "".join([seed.choice(string.ascii_letters) for n in range(L)])
65
+
66
+
67
+ def _min_weight(weight):
68
+ return -weight
69
+
70
+
71
+ def _max_weight(weight):
72
+ return weight
73
+
74
+
75
+ @nx._dispatchable(edge_attrs={"attr": "default"})
76
+ def branching_weight(G, attr="weight", default=1):
77
+ """
78
+ Returns the total weight of a branching.
79
+
80
+ You must access this function through the networkx.algorithms.tree module.
81
+
82
+ Parameters
83
+ ----------
84
+ G : DiGraph
85
+ The directed graph.
86
+ attr : str
87
+ The attribute to use as weights. If None, then each edge will be
88
+ treated equally with a weight of 1.
89
+ default : float
90
+ When `attr` is not None, then if an edge does not have that attribute,
91
+ `default` specifies what value it should take.
92
+
93
+ Returns
94
+ -------
95
+ weight: int or float
96
+ The total weight of the branching.
97
+
98
+ Examples
99
+ --------
100
+ >>> G = nx.DiGraph()
101
+ >>> G.add_weighted_edges_from([(0, 1, 2), (1, 2, 4), (2, 3, 3), (3, 4, 2)])
102
+ >>> nx.tree.branching_weight(G)
103
+ 11
104
+
105
+ """
106
+ return sum(edge[2].get(attr, default) for edge in G.edges(data=True))
107
+
108
+
109
+ @py_random_state(4)
110
+ @nx._dispatchable(edge_attrs={"attr": "default"}, returns_graph=True)
111
+ def greedy_branching(G, attr="weight", default=1, kind="max", seed=None):
112
+ """
113
+ Returns a branching obtained through a greedy algorithm.
114
+
115
+ This algorithm is wrong, and cannot give a proper optimal branching.
116
+ However, we include it for pedagogical reasons, as it can be helpful to
117
+ see what its outputs are.
118
+
119
+ The output is a branching, and possibly, a spanning arborescence. However,
120
+ it is not guaranteed to be optimal in either case.
121
+
122
+ Parameters
123
+ ----------
124
+ G : DiGraph
125
+ The directed graph to scan.
126
+ attr : str
127
+ The attribute to use as weights. If None, then each edge will be
128
+ treated equally with a weight of 1.
129
+ default : float
130
+ When `attr` is not None, then if an edge does not have that attribute,
131
+ `default` specifies what value it should take.
132
+ kind : str
133
+ The type of optimum to search for: 'min' or 'max' greedy branching.
134
+ seed : integer, random_state, or None (default)
135
+ Indicator of random number generation state.
136
+ See :ref:`Randomness<randomness>`.
137
+
138
+ Returns
139
+ -------
140
+ B : directed graph
141
+ The greedily obtained branching.
142
+
143
+ """
144
+ if kind not in KINDS:
145
+ raise nx.NetworkXException("Unknown value for `kind`.")
146
+
147
+ if kind == "min":
148
+ reverse = False
149
+ else:
150
+ reverse = True
151
+
152
+ if attr is None:
153
+ # Generate a random string the graph probably won't have.
154
+ attr = random_string(seed=seed)
155
+
156
+ edges = [(u, v, data.get(attr, default)) for (u, v, data) in G.edges(data=True)]
157
+
158
+ # We sort by weight, but also by nodes to normalize behavior across runs.
159
+ try:
160
+ edges.sort(key=itemgetter(2, 0, 1), reverse=reverse)
161
+ except TypeError:
162
+ # This will fail in Python 3.x if the nodes are of varying types.
163
+ # In that case, we use the arbitrary order.
164
+ edges.sort(key=itemgetter(2), reverse=reverse)
165
+
166
+ # The branching begins with a forest of no edges.
167
+ B = nx.DiGraph()
168
+ B.add_nodes_from(G)
169
+
170
+ # Now we add edges greedily so long we maintain the branching.
171
+ uf = nx.utils.UnionFind()
172
+ for i, (u, v, w) in enumerate(edges):
173
+ if uf[u] == uf[v]:
174
+ # Adding this edge would form a directed cycle.
175
+ continue
176
+ elif B.in_degree(v) == 1:
177
+ # The edge would increase the degree to be greater than one.
178
+ continue
179
+ else:
180
+ # If attr was None, then don't insert weights...
181
+ data = {}
182
+ if attr is not None:
183
+ data[attr] = w
184
+ B.add_edge(u, v, **data)
185
+ uf.union(u, v)
186
+
187
+ return B
188
+
189
+
190
+ @nx._dispatchable(preserve_edge_attrs=True, returns_graph=True)
191
+ def maximum_branching(
192
+ G,
193
+ attr="weight",
194
+ default=1,
195
+ preserve_attrs=False,
196
+ partition=None,
197
+ ):
198
+ #######################################
199
+ ### Data Structure Helper Functions ###
200
+ #######################################
201
+
202
+ def edmonds_add_edge(G, edge_index, u, v, key, **d):
203
+ """
204
+ Adds an edge to `G` while also updating the edge index.
205
+
206
+ This algorithm requires the use of an external dictionary to track
207
+ the edge keys since it is possible that the source or destination
208
+ node of an edge will be changed and the default key-handling
209
+ capabilities of the MultiDiGraph class do not account for this.
210
+
211
+ Parameters
212
+ ----------
213
+ G : MultiDiGraph
214
+ The graph to insert an edge into.
215
+ edge_index : dict
216
+ A mapping from integers to the edges of the graph.
217
+ u : node
218
+ The source node of the new edge.
219
+ v : node
220
+ The destination node of the new edge.
221
+ key : int
222
+ The key to use from `edge_index`.
223
+ d : keyword arguments, optional
224
+ Other attributes to store on the new edge.
225
+ """
226
+
227
+ if key in edge_index:
228
+ uu, vv, _ = edge_index[key]
229
+ if (u != uu) or (v != vv):
230
+ raise Exception(f"Key {key!r} is already in use.")
231
+
232
+ G.add_edge(u, v, key, **d)
233
+ edge_index[key] = (u, v, G.succ[u][v][key])
234
+
235
+ def edmonds_remove_node(G, edge_index, n):
236
+ """
237
+ Remove a node from the graph, updating the edge index to match.
238
+
239
+ Parameters
240
+ ----------
241
+ G : MultiDiGraph
242
+ The graph to remove an edge from.
243
+ edge_index : dict
244
+ A mapping from integers to the edges of the graph.
245
+ n : node
246
+ The node to remove from `G`.
247
+ """
248
+ keys = set()
249
+ for keydict in G.pred[n].values():
250
+ keys.update(keydict)
251
+ for keydict in G.succ[n].values():
252
+ keys.update(keydict)
253
+
254
+ for key in keys:
255
+ del edge_index[key]
256
+
257
+ G.remove_node(n)
258
+
259
+ #######################
260
+ ### Algorithm Setup ###
261
+ #######################
262
+
263
+ # Pick an attribute name that the original graph is unlikly to have
264
+ candidate_attr = "edmonds' secret candidate attribute"
265
+ new_node_base_name = "edmonds new node base name "
266
+
267
+ G_original = G
268
+ G = nx.MultiDiGraph()
269
+ G.__networkx_cache__ = None # Disable caching
270
+
271
+ # A dict to reliably track mutations to the edges using the key of the edge.
272
+ G_edge_index = {}
273
+ # Each edge is given an arbitrary numerical key
274
+ for key, (u, v, data) in enumerate(G_original.edges(data=True)):
275
+ d = {attr: data.get(attr, default)}
276
+
277
+ if data.get(partition) is not None:
278
+ d[partition] = data.get(partition)
279
+
280
+ if preserve_attrs:
281
+ for d_k, d_v in data.items():
282
+ if d_k != attr:
283
+ d[d_k] = d_v
284
+
285
+ edmonds_add_edge(G, G_edge_index, u, v, key, **d)
286
+
287
+ level = 0 # Stores the number of contracted nodes
288
+
289
+ # These are the buckets from the paper.
290
+ #
291
+ # In the paper, G^i are modified versions of the original graph.
292
+ # D^i and E^i are the nodes and edges of the maximal edges that are
293
+ # consistent with G^i. In this implementation, D^i and E^i are stored
294
+ # together as the graph B^i. We will have strictly more B^i then the
295
+ # paper will have.
296
+ #
297
+ # Note that the data in graphs and branchings are tuples with the graph as
298
+ # the first element and the edge index as the second.
299
+ B = nx.MultiDiGraph()
300
+ B_edge_index = {}
301
+ graphs = [] # G^i list
302
+ branchings = [] # B^i list
303
+ selected_nodes = set() # D^i bucket
304
+ uf = nx.utils.UnionFind()
305
+
306
+ # A list of lists of edge indices. Each list is a circuit for graph G^i.
307
+ # Note the edge list is not required to be a circuit in G^0.
308
+ circuits = []
309
+
310
+ # Stores the index of the minimum edge in the circuit found in G^i and B^i.
311
+ # The ordering of the edges seems to preserver the weight ordering from
312
+ # G^0. So even if the circuit does not form a circuit in G^0, it is still
313
+ # true that the minimum edges in circuit G^0 (despite their weights being
314
+ # different)
315
+ minedge_circuit = []
316
+
317
+ ###########################
318
+ ### Algorithm Structure ###
319
+ ###########################
320
+
321
+ # Each step listed in the algorithm is an inner function. Thus, the overall
322
+ # loop structure is:
323
+ #
324
+ # while True:
325
+ # step_I1()
326
+ # if cycle detected:
327
+ # step_I2()
328
+ # elif every node of G is in D and E is a branching:
329
+ # break
330
+
331
+ ##################################
332
+ ### Algorithm Helper Functions ###
333
+ ##################################
334
+
335
+ def edmonds_find_desired_edge(v):
336
+ """
337
+ Find the edge directed towards v with maximal weight.
338
+
339
+ If an edge partition exists in this graph, return the included
340
+ edge if it exists and never return any excluded edge.
341
+
342
+ Note: There can only be one included edge for each vertex otherwise
343
+ the edge partition is empty.
344
+
345
+ Parameters
346
+ ----------
347
+ v : node
348
+ The node to search for the maximal weight incoming edge.
349
+ """
350
+ edge = None
351
+ max_weight = -INF
352
+ for u, _, key, data in G.in_edges(v, data=True, keys=True):
353
+ # Skip excluded edges
354
+ if data.get(partition) == nx.EdgePartition.EXCLUDED:
355
+ continue
356
+
357
+ new_weight = data[attr]
358
+
359
+ # Return the included edge
360
+ if data.get(partition) == nx.EdgePartition.INCLUDED:
361
+ max_weight = new_weight
362
+ edge = (u, v, key, new_weight, data)
363
+ break
364
+
365
+ # Find the best open edge
366
+ if new_weight > max_weight:
367
+ max_weight = new_weight
368
+ edge = (u, v, key, new_weight, data)
369
+
370
+ return edge, max_weight
371
+
372
+ def edmonds_step_I2(v, desired_edge, level):
373
+ """
374
+ Perform step I2 from Edmonds' paper
375
+
376
+ First, check if the last step I1 created a cycle. If it did not, do nothing.
377
+ If it did, store the cycle for later reference and contract it.
378
+
379
+ Parameters
380
+ ----------
381
+ v : node
382
+ The current node to consider
383
+ desired_edge : edge
384
+ The minimum desired edge to remove from the cycle.
385
+ level : int
386
+ The current level, i.e. the number of cycles that have already been removed.
387
+ """
388
+ u = desired_edge[0]
389
+
390
+ Q_nodes = nx.shortest_path(B, v, u)
391
+ Q_edges = [
392
+ list(B[Q_nodes[i]][vv].keys())[0] for i, vv in enumerate(Q_nodes[1:])
393
+ ]
394
+ Q_edges.append(desired_edge[2]) # Add the new edge key to complete the circuit
395
+
396
+ # Get the edge in the circuit with the minimum weight.
397
+ # Also, save the incoming weights for each node.
398
+ minweight = INF
399
+ minedge = None
400
+ Q_incoming_weight = {}
401
+ for edge_key in Q_edges:
402
+ u, v, data = B_edge_index[edge_key]
403
+ w = data[attr]
404
+ # We cannot remove an included edge, even if it is the
405
+ # minimum edge in the circuit
406
+ Q_incoming_weight[v] = w
407
+ if data.get(partition) == nx.EdgePartition.INCLUDED:
408
+ continue
409
+ if w < minweight:
410
+ minweight = w
411
+ minedge = edge_key
412
+
413
+ circuits.append(Q_edges)
414
+ minedge_circuit.append(minedge)
415
+ graphs.append((G.copy(), G_edge_index.copy()))
416
+ branchings.append((B.copy(), B_edge_index.copy()))
417
+
418
+ # Mutate the graph to contract the circuit
419
+ new_node = new_node_base_name + str(level)
420
+ G.add_node(new_node)
421
+ new_edges = []
422
+ for u, v, key, data in G.edges(data=True, keys=True):
423
+ if u in Q_incoming_weight:
424
+ if v in Q_incoming_weight:
425
+ # Circuit edge. For the moment do nothing,
426
+ # eventually it will be removed.
427
+ continue
428
+ else:
429
+ # Outgoing edge from a node in the circuit.
430
+ # Make it come from the new node instead
431
+ dd = data.copy()
432
+ new_edges.append((new_node, v, key, dd))
433
+ else:
434
+ if v in Q_incoming_weight:
435
+ # Incoming edge to the circuit.
436
+ # Update it's weight
437
+ w = data[attr]
438
+ w += minweight - Q_incoming_weight[v]
439
+ dd = data.copy()
440
+ dd[attr] = w
441
+ new_edges.append((u, new_node, key, dd))
442
+ else:
443
+ # Outside edge. No modification needed
444
+ continue
445
+
446
+ for node in Q_nodes:
447
+ edmonds_remove_node(G, G_edge_index, node)
448
+ edmonds_remove_node(B, B_edge_index, node)
449
+
450
+ selected_nodes.difference_update(set(Q_nodes))
451
+
452
+ for u, v, key, data in new_edges:
453
+ edmonds_add_edge(G, G_edge_index, u, v, key, **data)
454
+ if candidate_attr in data:
455
+ del data[candidate_attr]
456
+ edmonds_add_edge(B, B_edge_index, u, v, key, **data)
457
+ uf.union(u, v)
458
+
459
+ def is_root(G, u, edgekeys):
460
+ """
461
+ Returns True if `u` is a root node in G.
462
+
463
+ Node `u` is a root node if its in-degree over the specified edges is zero.
464
+
465
+ Parameters
466
+ ----------
467
+ G : Graph
468
+ The current graph.
469
+ u : node
470
+ The node in `G` to check if it is a root.
471
+ edgekeys : iterable of edges
472
+ The edges for which to check if `u` is a root of.
473
+ """
474
+ if u not in G:
475
+ raise Exception(f"{u!r} not in G")
476
+
477
+ for v in G.pred[u]:
478
+ for edgekey in G.pred[u][v]:
479
+ if edgekey in edgekeys:
480
+ return False, edgekey
481
+ else:
482
+ return True, None
483
+
484
+ nodes = iter(list(G.nodes))
485
+ while True:
486
+ try:
487
+ v = next(nodes)
488
+ except StopIteration:
489
+ # If there are no more new nodes to consider, then we should
490
+ # meet stopping condition (b) from the paper:
491
+ # (b) every node of G^i is in D^i and E^i is a branching
492
+ assert len(G) == len(B)
493
+ if len(B):
494
+ assert is_branching(B)
495
+
496
+ graphs.append((G.copy(), G_edge_index.copy()))
497
+ branchings.append((B.copy(), B_edge_index.copy()))
498
+ circuits.append([])
499
+ minedge_circuit.append(None)
500
+
501
+ break
502
+ else:
503
+ #####################
504
+ ### BEGIN STEP I1 ###
505
+ #####################
506
+
507
+ # This is a very simple step, so I don't think it needs a method of it's own
508
+ if v in selected_nodes:
509
+ continue
510
+
511
+ selected_nodes.add(v)
512
+ B.add_node(v)
513
+ desired_edge, desired_edge_weight = edmonds_find_desired_edge(v)
514
+
515
+ # There might be no desired edge if all edges are excluded or
516
+ # v is the last node to be added to B, the ultimate root of the branching
517
+ if desired_edge is not None and desired_edge_weight > 0:
518
+ u = desired_edge[0]
519
+ # Flag adding the edge will create a circuit before merging the two
520
+ # connected components of u and v in B
521
+ circuit = uf[u] == uf[v]
522
+ dd = {attr: desired_edge_weight}
523
+ if desired_edge[4].get(partition) is not None:
524
+ dd[partition] = desired_edge[4].get(partition)
525
+
526
+ edmonds_add_edge(B, B_edge_index, u, v, desired_edge[2], **dd)
527
+ G[u][v][desired_edge[2]][candidate_attr] = True
528
+ uf.union(u, v)
529
+
530
+ ###################
531
+ ### END STEP I1 ###
532
+ ###################
533
+
534
+ #####################
535
+ ### BEGIN STEP I2 ###
536
+ #####################
537
+
538
+ if circuit:
539
+ edmonds_step_I2(v, desired_edge, level)
540
+ nodes = iter(list(G.nodes()))
541
+ level += 1
542
+
543
+ ###################
544
+ ### END STEP I2 ###
545
+ ###################
546
+
547
+ #####################
548
+ ### BEGIN STEP I3 ###
549
+ #####################
550
+
551
+ # Create a new graph of the same class as the input graph
552
+ H = G_original.__class__()
553
+
554
+ # Start with the branching edges in the last level.
555
+ edges = set(branchings[level][1])
556
+ while level > 0:
557
+ level -= 1
558
+
559
+ # The current level is i, and we start counting from 0.
560
+ #
561
+ # We need the node at level i+1 that results from merging a circuit
562
+ # at level i. basename_0 is the first merged node and this happens
563
+ # at level 1. That is basename_0 is a node at level 1 that results
564
+ # from merging a circuit at level 0.
565
+
566
+ merged_node = new_node_base_name + str(level)
567
+ circuit = circuits[level]
568
+ isroot, edgekey = is_root(graphs[level + 1][0], merged_node, edges)
569
+ edges.update(circuit)
570
+
571
+ if isroot:
572
+ minedge = minedge_circuit[level]
573
+ if minedge is None:
574
+ raise Exception
575
+
576
+ # Remove the edge in the cycle with minimum weight
577
+ edges.remove(minedge)
578
+ else:
579
+ # We have identified an edge at the next higher level that
580
+ # transitions into the merged node at this level. That edge
581
+ # transitions to some corresponding node at the current level.
582
+ #
583
+ # We want to remove an edge from the cycle that transitions
584
+ # into the corresponding node, otherwise the result would not
585
+ # be a branching.
586
+
587
+ G, G_edge_index = graphs[level]
588
+ target = G_edge_index[edgekey][1]
589
+ for edgekey in circuit:
590
+ u, v, data = G_edge_index[edgekey]
591
+ if v == target:
592
+ break
593
+ else:
594
+ raise Exception("Couldn't find edge incoming to merged node.")
595
+
596
+ edges.remove(edgekey)
597
+
598
+ H.add_nodes_from(G_original)
599
+ for edgekey in edges:
600
+ u, v, d = graphs[0][1][edgekey]
601
+ dd = {attr: d[attr]}
602
+
603
+ if preserve_attrs:
604
+ for key, value in d.items():
605
+ if key not in [attr, candidate_attr]:
606
+ dd[key] = value
607
+
608
+ H.add_edge(u, v, **dd)
609
+
610
+ ###################
611
+ ### END STEP I3 ###
612
+ ###################
613
+
614
+ return H
615
+
616
+
617
+ @nx._dispatchable(preserve_edge_attrs=True, mutates_input=True, returns_graph=True)
618
+ def minimum_branching(
619
+ G, attr="weight", default=1, preserve_attrs=False, partition=None
620
+ ):
621
+ for _, _, d in G.edges(data=True):
622
+ d[attr] = -d.get(attr, default)
623
+ nx._clear_cache(G)
624
+
625
+ B = maximum_branching(G, attr, default, preserve_attrs, partition)
626
+
627
+ for _, _, d in G.edges(data=True):
628
+ d[attr] = -d.get(attr, default)
629
+ nx._clear_cache(G)
630
+
631
+ for _, _, d in B.edges(data=True):
632
+ d[attr] = -d.get(attr, default)
633
+ nx._clear_cache(B)
634
+
635
+ return B
636
+
637
+
638
+ @nx._dispatchable(preserve_edge_attrs=True, mutates_input=True, returns_graph=True)
639
+ def minimal_branching(
640
+ G, /, *, attr="weight", default=1, preserve_attrs=False, partition=None
641
+ ):
642
+ """
643
+ Returns a minimal branching from `G`.
644
+
645
+ A minimal branching is a branching similar to a minimal arborescence but
646
+ without the requirement that the result is actually a spanning arborescence.
647
+ This allows minimal branchinges to be computed over graphs which may not
648
+ have arborescence (such as multiple components).
649
+
650
+ Parameters
651
+ ----------
652
+ G : (multi)digraph-like
653
+ The graph to be searched.
654
+ attr : str
655
+ The edge attribute used in determining optimality.
656
+ default : float
657
+ The value of the edge attribute used if an edge does not have
658
+ the attribute `attr`.
659
+ preserve_attrs : bool
660
+ If True, preserve the other attributes of the original graph (that are not
661
+ passed to `attr`)
662
+ partition : str
663
+ The key for the edge attribute containing the partition
664
+ data on the graph. Edges can be included, excluded or open using the
665
+ `EdgePartition` enum.
666
+
667
+ Returns
668
+ -------
669
+ B : (multi)digraph-like
670
+ A minimal branching.
671
+ """
672
+ max_weight = -INF
673
+ min_weight = INF
674
+ for _, _, w in G.edges(data=attr, default=default):
675
+ if w > max_weight:
676
+ max_weight = w
677
+ if w < min_weight:
678
+ min_weight = w
679
+
680
+ for _, _, d in G.edges(data=True):
681
+ # Transform the weights so that the minimum weight is larger than
682
+ # the difference between the max and min weights. This is important
683
+ # in order to prevent the edge weights from becoming negative during
684
+ # computation
685
+ d[attr] = max_weight + 1 + (max_weight - min_weight) - d.get(attr, default)
686
+ nx._clear_cache(G)
687
+
688
+ B = maximum_branching(G, attr, default, preserve_attrs, partition)
689
+
690
+ # Reverse the weight transformations
691
+ for _, _, d in G.edges(data=True):
692
+ d[attr] = max_weight + 1 + (max_weight - min_weight) - d.get(attr, default)
693
+ nx._clear_cache(G)
694
+
695
+ for _, _, d in B.edges(data=True):
696
+ d[attr] = max_weight + 1 + (max_weight - min_weight) - d.get(attr, default)
697
+ nx._clear_cache(B)
698
+
699
+ return B
700
+
701
+
702
+ @nx._dispatchable(preserve_edge_attrs=True, mutates_input=True, returns_graph=True)
703
+ def maximum_spanning_arborescence(
704
+ G, attr="weight", default=1, preserve_attrs=False, partition=None
705
+ ):
706
+ # In order to use the same algorithm is the maximum branching, we need to adjust
707
+ # the weights of the graph. The branching algorithm can choose to not include an
708
+ # edge if it doesn't help find a branching, mainly triggered by edges with negative
709
+ # weights.
710
+ #
711
+ # To prevent this from happening while trying to find a spanning arborescence, we
712
+ # just have to tweak the edge weights so that they are all positive and cannot
713
+ # become negative during the branching algorithm, find the maximum branching and
714
+ # then return them to their original values.
715
+
716
+ min_weight = INF
717
+ max_weight = -INF
718
+ for _, _, w in G.edges(data=attr, default=default):
719
+ if w < min_weight:
720
+ min_weight = w
721
+ if w > max_weight:
722
+ max_weight = w
723
+
724
+ for _, _, d in G.edges(data=True):
725
+ d[attr] = d.get(attr, default) - min_weight + 1 - (min_weight - max_weight)
726
+ nx._clear_cache(G)
727
+
728
+ B = maximum_branching(G, attr, default, preserve_attrs, partition)
729
+
730
+ for _, _, d in G.edges(data=True):
731
+ d[attr] = d.get(attr, default) + min_weight - 1 + (min_weight - max_weight)
732
+ nx._clear_cache(G)
733
+
734
+ for _, _, d in B.edges(data=True):
735
+ d[attr] = d.get(attr, default) + min_weight - 1 + (min_weight - max_weight)
736
+ nx._clear_cache(B)
737
+
738
+ if not is_arborescence(B):
739
+ raise nx.exception.NetworkXException("No maximum spanning arborescence in G.")
740
+
741
+ return B
742
+
743
+
744
+ @nx._dispatchable(preserve_edge_attrs=True, mutates_input=True, returns_graph=True)
745
+ def minimum_spanning_arborescence(
746
+ G, attr="weight", default=1, preserve_attrs=False, partition=None
747
+ ):
748
+ B = minimal_branching(
749
+ G,
750
+ attr=attr,
751
+ default=default,
752
+ preserve_attrs=preserve_attrs,
753
+ partition=partition,
754
+ )
755
+
756
+ if not is_arborescence(B):
757
+ raise nx.exception.NetworkXException("No minimum spanning arborescence in G.")
758
+
759
+ return B
760
+
761
+
762
+ docstring_branching = """
763
+ Returns a {kind} {style} from G.
764
+
765
+ Parameters
766
+ ----------
767
+ G : (multi)digraph-like
768
+ The graph to be searched.
769
+ attr : str
770
+ The edge attribute used to in determining optimality.
771
+ default : float
772
+ The value of the edge attribute used if an edge does not have
773
+ the attribute `attr`.
774
+ preserve_attrs : bool
775
+ If True, preserve the other attributes of the original graph (that are not
776
+ passed to `attr`)
777
+ partition : str
778
+ The key for the edge attribute containing the partition
779
+ data on the graph. Edges can be included, excluded or open using the
780
+ `EdgePartition` enum.
781
+
782
+ Returns
783
+ -------
784
+ B : (multi)digraph-like
785
+ A {kind} {style}.
786
+ """
787
+
788
+ docstring_arborescence = (
789
+ docstring_branching
790
+ + """
791
+ Raises
792
+ ------
793
+ NetworkXException
794
+ If the graph does not contain a {kind} {style}.
795
+
796
+ """
797
+ )
798
+
799
+ maximum_branching.__doc__ = docstring_branching.format(
800
+ kind="maximum", style="branching"
801
+ )
802
+
803
+ minimum_branching.__doc__ = (
804
+ docstring_branching.format(kind="minimum", style="branching")
805
+ + """
806
+ See Also
807
+ --------
808
+ minimal_branching
809
+ """
810
+ )
811
+
812
+ maximum_spanning_arborescence.__doc__ = docstring_arborescence.format(
813
+ kind="maximum", style="spanning arborescence"
814
+ )
815
+
816
+ minimum_spanning_arborescence.__doc__ = docstring_arborescence.format(
817
+ kind="minimum", style="spanning arborescence"
818
+ )
819
+
820
+
821
+ class ArborescenceIterator:
822
+ """
823
+ Iterate over all spanning arborescences of a graph in either increasing or
824
+ decreasing cost.
825
+
826
+ Notes
827
+ -----
828
+ This iterator uses the partition scheme from [1]_ (included edges,
829
+ excluded edges and open edges). It generates minimum spanning
830
+ arborescences using a modified Edmonds' Algorithm which respects the
831
+ partition of edges. For arborescences with the same weight, ties are
832
+ broken arbitrarily.
833
+
834
+ References
835
+ ----------
836
+ .. [1] G.K. Janssens, K. Sörensen, An algorithm to generate all spanning
837
+ trees in order of increasing cost, Pesquisa Operacional, 2005-08,
838
+ Vol. 25 (2), p. 219-229,
839
+ https://www.scielo.br/j/pope/a/XHswBwRwJyrfL88dmMwYNWp/?lang=en
840
+ """
841
+
842
+ @dataclass(order=True)
843
+ class Partition:
844
+ """
845
+ This dataclass represents a partition and stores a dict with the edge
846
+ data and the weight of the minimum spanning arborescence of the
847
+ partition dict.
848
+ """
849
+
850
+ mst_weight: float
851
+ partition_dict: dict = field(compare=False)
852
+
853
+ def __copy__(self):
854
+ return ArborescenceIterator.Partition(
855
+ self.mst_weight, self.partition_dict.copy()
856
+ )
857
+
858
+ def __init__(self, G, weight="weight", minimum=True, init_partition=None):
859
+ """
860
+ Initialize the iterator
861
+
862
+ Parameters
863
+ ----------
864
+ G : nx.DiGraph
865
+ The directed graph which we need to iterate trees over
866
+
867
+ weight : String, default = "weight"
868
+ The edge attribute used to store the weight of the edge
869
+
870
+ minimum : bool, default = True
871
+ Return the trees in increasing order while true and decreasing order
872
+ while false.
873
+
874
+ init_partition : tuple, default = None
875
+ In the case that certain edges have to be included or excluded from
876
+ the arborescences, `init_partition` should be in the form
877
+ `(included_edges, excluded_edges)` where each edges is a
878
+ `(u, v)`-tuple inside an iterable such as a list or set.
879
+
880
+ """
881
+ self.G = G.copy()
882
+ self.weight = weight
883
+ self.minimum = minimum
884
+ self.method = (
885
+ minimum_spanning_arborescence if minimum else maximum_spanning_arborescence
886
+ )
887
+ # Randomly create a key for an edge attribute to hold the partition data
888
+ self.partition_key = (
889
+ "ArborescenceIterators super secret partition attribute name"
890
+ )
891
+ if init_partition is not None:
892
+ partition_dict = {}
893
+ for e in init_partition[0]:
894
+ partition_dict[e] = nx.EdgePartition.INCLUDED
895
+ for e in init_partition[1]:
896
+ partition_dict[e] = nx.EdgePartition.EXCLUDED
897
+ self.init_partition = ArborescenceIterator.Partition(0, partition_dict)
898
+ else:
899
+ self.init_partition = None
900
+
901
+ def __iter__(self):
902
+ """
903
+ Returns
904
+ -------
905
+ ArborescenceIterator
906
+ The iterator object for this graph
907
+ """
908
+ self.partition_queue = PriorityQueue()
909
+ self._clear_partition(self.G)
910
+
911
+ # Write the initial partition if it exists.
912
+ if self.init_partition is not None:
913
+ self._write_partition(self.init_partition)
914
+
915
+ mst_weight = self.method(
916
+ self.G,
917
+ self.weight,
918
+ partition=self.partition_key,
919
+ preserve_attrs=True,
920
+ ).size(weight=self.weight)
921
+
922
+ self.partition_queue.put(
923
+ self.Partition(
924
+ mst_weight if self.minimum else -mst_weight,
925
+ (
926
+ {}
927
+ if self.init_partition is None
928
+ else self.init_partition.partition_dict
929
+ ),
930
+ )
931
+ )
932
+
933
+ return self
934
+
935
+ def __next__(self):
936
+ """
937
+ Returns
938
+ -------
939
+ (multi)Graph
940
+ The spanning tree of next greatest weight, which ties broken
941
+ arbitrarily.
942
+ """
943
+ if self.partition_queue.empty():
944
+ del self.G, self.partition_queue
945
+ raise StopIteration
946
+
947
+ partition = self.partition_queue.get()
948
+ self._write_partition(partition)
949
+ next_arborescence = self.method(
950
+ self.G,
951
+ self.weight,
952
+ partition=self.partition_key,
953
+ preserve_attrs=True,
954
+ )
955
+ self._partition(partition, next_arborescence)
956
+
957
+ self._clear_partition(next_arborescence)
958
+ return next_arborescence
959
+
960
+ def _partition(self, partition, partition_arborescence):
961
+ """
962
+ Create new partitions based of the minimum spanning tree of the
963
+ current minimum partition.
964
+
965
+ Parameters
966
+ ----------
967
+ partition : Partition
968
+ The Partition instance used to generate the current minimum spanning
969
+ tree.
970
+ partition_arborescence : nx.Graph
971
+ The minimum spanning arborescence of the input partition.
972
+ """
973
+ # create two new partitions with the data from the input partition dict
974
+ p1 = self.Partition(0, partition.partition_dict.copy())
975
+ p2 = self.Partition(0, partition.partition_dict.copy())
976
+ for e in partition_arborescence.edges:
977
+ # determine if the edge was open or included
978
+ if e not in partition.partition_dict:
979
+ # This is an open edge
980
+ p1.partition_dict[e] = nx.EdgePartition.EXCLUDED
981
+ p2.partition_dict[e] = nx.EdgePartition.INCLUDED
982
+
983
+ self._write_partition(p1)
984
+ try:
985
+ p1_mst = self.method(
986
+ self.G,
987
+ self.weight,
988
+ partition=self.partition_key,
989
+ preserve_attrs=True,
990
+ )
991
+
992
+ p1_mst_weight = p1_mst.size(weight=self.weight)
993
+ p1.mst_weight = p1_mst_weight if self.minimum else -p1_mst_weight
994
+ self.partition_queue.put(p1.__copy__())
995
+ except nx.NetworkXException:
996
+ pass
997
+
998
+ p1.partition_dict = p2.partition_dict.copy()
999
+
1000
+ def _write_partition(self, partition):
1001
+ """
1002
+ Writes the desired partition into the graph to calculate the minimum
1003
+ spanning tree. Also, if one incoming edge is included, mark all others
1004
+ as excluded so that if that vertex is merged during Edmonds' algorithm
1005
+ we cannot still pick another of that vertex's included edges.
1006
+
1007
+ Parameters
1008
+ ----------
1009
+ partition : Partition
1010
+ A Partition dataclass describing a partition on the edges of the
1011
+ graph.
1012
+ """
1013
+ for u, v, d in self.G.edges(data=True):
1014
+ if (u, v) in partition.partition_dict:
1015
+ d[self.partition_key] = partition.partition_dict[(u, v)]
1016
+ else:
1017
+ d[self.partition_key] = nx.EdgePartition.OPEN
1018
+ nx._clear_cache(self.G)
1019
+
1020
+ for n in self.G:
1021
+ included_count = 0
1022
+ excluded_count = 0
1023
+ for u, v, d in self.G.in_edges(nbunch=n, data=True):
1024
+ if d.get(self.partition_key) == nx.EdgePartition.INCLUDED:
1025
+ included_count += 1
1026
+ elif d.get(self.partition_key) == nx.EdgePartition.EXCLUDED:
1027
+ excluded_count += 1
1028
+ # Check that if there is an included edges, all other incoming ones
1029
+ # are excluded. If not fix it!
1030
+ if included_count == 1 and excluded_count != self.G.in_degree(n) - 1:
1031
+ for u, v, d in self.G.in_edges(nbunch=n, data=True):
1032
+ if d.get(self.partition_key) != nx.EdgePartition.INCLUDED:
1033
+ d[self.partition_key] = nx.EdgePartition.EXCLUDED
1034
+
1035
+ def _clear_partition(self, G):
1036
+ """
1037
+ Removes partition data from the graph
1038
+ """
1039
+ for u, v, d in G.edges(data=True):
1040
+ if self.partition_key in d:
1041
+ del d[self.partition_key]
1042
+ nx._clear_cache(self.G)