scikit-network 0.32.0__tar.gz → 0.33.0__tar.gz

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  1. {scikit-network-0.32.0 → scikit-network-0.33.0}/AUTHORS.rst +0 -1
  2. {scikit-network-0.32.0 → scikit-network-0.33.0}/HISTORY.rst +13 -1
  3. {scikit-network-0.32.0 → scikit-network-0.33.0}/PKG-INFO +16 -4
  4. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/visualization.rst +1 -1
  5. {scikit-network-0.32.0 → scikit-network-0.33.0}/scikit_network.egg-info/PKG-INFO +16 -4
  6. {scikit-network-0.32.0 → scikit-network-0.33.0}/setup.cfg +2 -2
  7. {scikit-network-0.32.0 → scikit-network-0.33.0}/setup.py +3 -3
  8. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/__init__.py +1 -1
  9. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/diffusion.py +4 -3
  10. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/knn.py +4 -3
  11. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/metrics.py +3 -3
  12. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/propagation.py +6 -5
  13. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/leiden.py +2 -1
  14. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/louvain.py +3 -3
  15. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/tests/test_kcenters.py +5 -37
  16. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/__init__.py +1 -1
  17. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/base.py +7 -2
  18. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/load.py +18 -21
  19. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/models.py +15 -15
  20. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/parse.py +19 -17
  21. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/tests/test_API.py +3 -3
  22. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/tests/test_base.py +2 -2
  23. scikit-network-0.33.0/sknetwork/data/tests/test_toy_graphs.py +68 -0
  24. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/toy_graphs.py +35 -43
  25. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/base.py +3 -0
  26. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/louvain_embedding.py +0 -26
  27. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/svd.py +0 -4
  28. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/tests/test_louvain_embedding.py +9 -4
  29. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/tests/test_svd.py +6 -0
  30. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/gnn_classifier.py +1 -1
  31. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/louvain_hierarchy.py +10 -6
  32. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/paris.cpp +703 -701
  33. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/paris.pyx +4 -3
  34. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/tests/test_metrics.py +4 -4
  35. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/push.cpp +69 -69
  36. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/regression/diffusion.py +6 -4
  37. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/cliques.cpp +69 -69
  38. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/core.cpp +69 -69
  39. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/__init__.py +1 -1
  40. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/values.py +5 -3
  41. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/visualization/graphs.py +1 -1
  42. scikit-network-0.32.0/sknetwork/data/tests/test_toy_graphs.py +0 -68
  43. {scikit-network-0.32.0 → scikit-network-0.33.0}/CONTRIBUTING.rst +0 -0
  44. {scikit-network-0.32.0 → scikit-network-0.33.0}/LICENSE +0 -0
  45. {scikit-network-0.32.0 → scikit-network-0.33.0}/MANIFEST.in +0 -0
  46. {scikit-network-0.32.0 → scikit-network-0.33.0}/README.rst +0 -0
  47. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/Makefile +0 -0
  48. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/authors.rst +0 -0
  49. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/conf.py +0 -0
  50. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/contributing.rst +0 -0
  51. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/first_steps.rst +0 -0
  52. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/genindex.rst +0 -0
  53. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/glossary.rst +0 -0
  54. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/history.rst +0 -0
  55. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/index.rst +0 -0
  56. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/make.bat +0 -0
  57. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/readme.rst +0 -0
  58. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/classification.rst +0 -0
  59. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/clustering.rst +0 -0
  60. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/data.rst +0 -0
  61. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/embedding.rst +0 -0
  62. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/gnn.rst +0 -0
  63. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/hierarchy.rst +0 -0
  64. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/linalg.rst +0 -0
  65. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/linkpred.rst +0 -0
  66. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/path.rst +0 -0
  67. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/ranking.rst +0 -0
  68. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/regression.rst +0 -0
  69. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/topology.rst +0 -0
  70. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/utils.rst +0 -0
  71. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/classification/index.rst +0 -0
  72. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/clustering/index.rst +0 -0
  73. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/data/index.rst +0 -0
  74. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/embedding/index.rst +0 -0
  75. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/gnn/index.rst +0 -0
  76. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/hierarchy/index.rst +0 -0
  77. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/linkpred/index.rst +0 -0
  78. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/overview/index.rst +0 -0
  79. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/path/index.rst +0 -0
  80. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/ranking/index.rst +0 -0
  81. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/regression/index.rst +0 -0
  82. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/topology/index.rst +0 -0
  83. {scikit-network-0.32.0 → scikit-network-0.33.0}/docs/tutorials/visualization/index.rst +0 -0
  84. {scikit-network-0.32.0 → scikit-network-0.33.0}/scikit_network.egg-info/SOURCES.txt +0 -0
  85. {scikit-network-0.32.0 → scikit-network-0.33.0}/scikit_network.egg-info/dependency_links.txt +0 -0
  86. {scikit-network-0.32.0 → scikit-network-0.33.0}/scikit_network.egg-info/not-zip-safe +0 -0
  87. {scikit-network-0.32.0 → scikit-network-0.33.0}/scikit_network.egg-info/requires.txt +0 -0
  88. {scikit-network-0.32.0 → scikit-network-0.33.0}/scikit_network.egg-info/top_level.txt +0 -0
  89. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/base.py +0 -0
  90. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/__init__.py +0 -0
  91. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/base.py +0 -0
  92. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/base_rank.py +0 -0
  93. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/pagerank.py +0 -0
  94. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/tests/__init__.py +0 -0
  95. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/tests/test_API.py +0 -0
  96. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/tests/test_diffusion.py +0 -0
  97. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/tests/test_knn.py +0 -0
  98. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/tests/test_metrics.py +0 -0
  99. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/tests/test_pagerank.py +0 -0
  100. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/tests/test_propagation.py +0 -0
  101. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/vote.cpp +0 -0
  102. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/vote.pyx +0 -0
  103. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/__init__.py +0 -0
  104. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/base.py +0 -0
  105. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/kcenters.py +0 -0
  106. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/leiden_core.cpp +0 -0
  107. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/leiden_core.pyx +0 -0
  108. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/louvain_core.cpp +0 -0
  109. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/louvain_core.pyx +0 -0
  110. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/metrics.py +0 -0
  111. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/postprocess.py +0 -0
  112. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/propagation_clustering.py +0 -0
  113. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/tests/__init__.py +0 -0
  114. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/tests/test_API.py +0 -0
  115. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/tests/test_leiden.py +0 -0
  116. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/tests/test_louvain.py +0 -0
  117. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/tests/test_metrics.py +0 -0
  118. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/tests/test_postprocess.py +0 -0
  119. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/test_graphs.py +0 -0
  120. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/tests/__init__.py +0 -0
  121. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/tests/test_load.py +0 -0
  122. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/tests/test_models.py +0 -0
  123. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/tests/test_parse.py +0 -0
  124. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/tests/test_test_graphs.py +0 -0
  125. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/timeout.py +0 -0
  126. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/__init__.py +0 -0
  127. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/force_atlas.py +0 -0
  128. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/random_projection.py +0 -0
  129. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/spectral.py +0 -0
  130. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/spring.py +0 -0
  131. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/tests/__init__.py +0 -0
  132. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/tests/test_API.py +0 -0
  133. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/tests/test_force_atlas.py +0 -0
  134. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/tests/test_random_projection.py +0 -0
  135. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/tests/test_spectral.py +0 -0
  136. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/embedding/tests/test_spring.py +0 -0
  137. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/__init__.py +0 -0
  138. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/activation.py +0 -0
  139. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/base.py +0 -0
  140. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/base_activation.py +0 -0
  141. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/base_layer.py +0 -0
  142. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/layer.py +0 -0
  143. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/loss.py +0 -0
  144. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/neighbor_sampler.py +0 -0
  145. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/optimizer.py +0 -0
  146. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/tests/__init__.py +0 -0
  147. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/tests/test_activation.py +0 -0
  148. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/tests/test_base.py +0 -0
  149. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/tests/test_base_layer.py +0 -0
  150. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/tests/test_gnn_classifier.py +0 -0
  151. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/tests/test_layers.py +0 -0
  152. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/tests/test_loss.py +0 -0
  153. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/tests/test_neigh_sampler.py +0 -0
  154. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/tests/test_optimizer.py +0 -0
  155. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/tests/test_utils.py +0 -0
  156. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/gnn/utils.py +0 -0
  157. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/__init__.py +0 -0
  158. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/base.py +0 -0
  159. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/metrics.py +0 -0
  160. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/postprocess.py +0 -0
  161. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/tests/__init__.py +0 -0
  162. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/tests/test_API.py +0 -0
  163. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/tests/test_algos.py +0 -0
  164. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/hierarchy/tests/test_postprocess.py +0 -0
  165. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/__init__.py +0 -0
  166. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/basics.py +0 -0
  167. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/diteration.cpp +0 -0
  168. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/diteration.pyx +0 -0
  169. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/eig_solver.py +0 -0
  170. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/laplacian.py +0 -0
  171. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/normalizer.py +0 -0
  172. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/operators.py +0 -0
  173. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/polynome.py +0 -0
  174. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/ppr_solver.py +0 -0
  175. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/push.pyx +0 -0
  176. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/sparse_lowrank.py +0 -0
  177. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/svd_solver.py +0 -0
  178. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/tests/__init__.py +0 -0
  179. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/tests/test_eig.py +0 -0
  180. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/tests/test_laplacian.py +0 -0
  181. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/tests/test_normalization.py +0 -0
  182. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/tests/test_operators.py +0 -0
  183. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/tests/test_polynome.py +0 -0
  184. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/tests/test_ppr.py +0 -0
  185. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/tests/test_sparse_lowrank.py +0 -0
  186. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linalg/tests/test_svd.py +0 -0
  187. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linkpred/__init__.py +0 -0
  188. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linkpred/base.py +0 -0
  189. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linkpred/nn.py +0 -0
  190. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linkpred/tests/__init__.py +0 -0
  191. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/linkpred/tests/test_nn.py +0 -0
  192. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/log.py +0 -0
  193. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/path/__init__.py +0 -0
  194. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/path/dag.py +0 -0
  195. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/path/distances.py +0 -0
  196. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/path/search.py +0 -0
  197. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/path/shortest_path.py +0 -0
  198. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/path/tests/__init__.py +0 -0
  199. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/path/tests/test_dag.py +0 -0
  200. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/path/tests/test_distances.py +0 -0
  201. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/path/tests/test_search.py +0 -0
  202. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/path/tests/test_shortest_path.py +0 -0
  203. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/__init__.py +0 -0
  204. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/base.py +0 -0
  205. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/betweenness.cpp +0 -0
  206. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/betweenness.pyx +0 -0
  207. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/closeness.py +0 -0
  208. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/hits.py +0 -0
  209. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/katz.py +0 -0
  210. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/pagerank.py +0 -0
  211. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/postprocess.py +0 -0
  212. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/tests/__init__.py +0 -0
  213. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/tests/test_API.py +0 -0
  214. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/tests/test_betweenness.py +0 -0
  215. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/tests/test_closeness.py +0 -0
  216. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/tests/test_hits.py +0 -0
  217. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/tests/test_pagerank.py +0 -0
  218. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/ranking/tests/test_postprocess.py +0 -0
  219. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/regression/__init__.py +0 -0
  220. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/regression/base.py +0 -0
  221. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/regression/tests/__init__.py +0 -0
  222. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/regression/tests/test_API.py +0 -0
  223. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/regression/tests/test_diffusion.py +0 -0
  224. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/sknetwork.py +0 -0
  225. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/test_base.py +0 -0
  226. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/test_log.py +0 -0
  227. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/__init__.py +0 -0
  228. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/cliques.pyx +0 -0
  229. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/core.pyx +0 -0
  230. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/cycles.py +0 -0
  231. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/minheap.cpp +0 -0
  232. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/minheap.pxd +0 -0
  233. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/minheap.pyx +0 -0
  234. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/structure.py +0 -0
  235. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/tests/__init__.py +0 -0
  236. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/tests/test_cliques.py +0 -0
  237. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/tests/test_core.py +0 -0
  238. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/tests/test_cycles.py +0 -0
  239. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/tests/test_structure.py +0 -0
  240. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/tests/test_triangles.py +0 -0
  241. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/tests/test_wl.py +0 -0
  242. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/triangles.cpp +0 -0
  243. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/triangles.pyx +0 -0
  244. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/weisfeiler_lehman.py +0 -0
  245. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/weisfeiler_lehman_core.cpp +0 -0
  246. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/topology/weisfeiler_lehman_core.pyx +0 -0
  247. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/check.py +0 -0
  248. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/format.py +0 -0
  249. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/membership.py +0 -0
  250. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/neighbors.py +0 -0
  251. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/tests/__init__.py +0 -0
  252. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/tests/test_check.py +0 -0
  253. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/tests/test_format.py +0 -0
  254. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/tests/test_membership.py +0 -0
  255. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/tests/test_neighbors.py +0 -0
  256. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/tests/test_tfidf.py +0 -0
  257. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/tests/test_values.py +0 -0
  258. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/utils/tfidf.py +0 -0
  259. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/visualization/__init__.py +0 -0
  260. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/visualization/colors.py +0 -0
  261. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/visualization/dendrograms.py +0 -0
  262. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/visualization/tests/__init__.py +0 -0
  263. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/visualization/tests/test_dendrograms.py +0 -0
  264. {scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/visualization/tests/test_graphs.py +0 -0
{scikit-network-0.32.0 → scikit-network-0.33.0}/AUTHORS.rst RENAMED
@@ -13,7 +13,6 @@ Development Lead
13
13
  * Simon Delarue <simon.delarue@telecom-paris.fr>
14
14
  * Marc Jeanmougin <marc.jeanmougin@telecom-paris.fr>
15
15
 
16
-
17
16
  Former lead
18
17
  -----------
19
18
 
{scikit-network-0.32.0 → scikit-network-0.33.0}/HISTORY.rst RENAMED
@@ -2,7 +2,19 @@
2
2
  History
3
3
  =======
4
4
 
5
- 0.32.0 (2024-03-28)
5
+ 0.33.0 (2024-07-16)
6
+ -------------------
7
+
8
+ * Add Python 3.12
9
+ * Drop Python 3.8
10
+
11
+ 0.32.1 (2024-04-02)
12
+ -------------------
13
+
14
+ * Fix documentation
15
+ * Fix wheel upload
16
+
17
+ 0.32.0 (2024-03-29)
6
18
  -------------------
7
19
 
8
20
  * Add Leiden clustering algorithm
{scikit-network-0.32.0 → scikit-network-0.33.0}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: scikit-network
3
- Version: 0.32.0
3
+ Version: 0.33.0
4
4
  Summary: Graph algorithms
5
5
  Home-page: https://github.com/sknetwork-team/scikit-network
6
6
  Author: Scikit-network team
@@ -15,11 +15,11 @@ Classifier: Intended Audience :: Science/Research
15
15
  Classifier: License :: OSI Approved :: BSD License
16
16
  Classifier: Natural Language :: English
17
17
  Classifier: Programming Language :: Cython
18
- Classifier: Programming Language :: Python :: 3.8
19
18
  Classifier: Programming Language :: Python :: 3.9
20
19
  Classifier: Programming Language :: Python :: 3.10
21
20
  Classifier: Programming Language :: Python :: 3.11
22
- Requires-Python: >=3.8
21
+ Classifier: Programming Language :: Python :: 3.12
22
+ Requires-Python: >=3.9
23
23
  Description-Content-Type: text/x-rst
24
24
  License-File: LICENSE
25
25
  License-File: AUTHORS.rst
@@ -116,7 +116,19 @@ the `Journal of Machine Learning Research <https://jmlr.org>`_:
116
116
  History
117
117
  =======
118
118
 
119
- 0.32.0 (2024-03-28)
119
+ 0.33.0 (2024-07-16)
120
+ -------------------
121
+
122
+ * Add Python 3.12
123
+ * Drop Python 3.8
124
+
125
+ 0.32.1 (2024-04-02)
126
+ -------------------
127
+
128
+ * Fix documentation
129
+ * Fix wheel upload
130
+
131
+ 0.32.0 (2024-03-29)
120
132
  -------------------
121
133
 
122
134
  * Add Leiden clustering algorithm
{scikit-network-0.32.0 → scikit-network-0.33.0}/docs/reference/visualization.rst RENAMED
@@ -8,7 +8,7 @@ Visualization tools.
8
8
  Graphs
9
9
  ------
10
10
 
11
- .. autofunction:: sknetwork.visualization.graphs.svg_graph
11
+ .. autofunction:: sknetwork.visualization.graphs.visualize_graph
12
12
 
13
13
  .. autofunction:: sknetwork.visualization.graphs.visualize_bigraph
14
14
 
{scikit-network-0.32.0 → scikit-network-0.33.0}/scikit_network.egg-info/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: scikit-network
3
- Version: 0.32.0
3
+ Version: 0.33.0
4
4
  Summary: Graph algorithms
5
5
  Home-page: https://github.com/sknetwork-team/scikit-network
6
6
  Author: Scikit-network team
@@ -15,11 +15,11 @@ Classifier: Intended Audience :: Science/Research
15
15
  Classifier: License :: OSI Approved :: BSD License
16
16
  Classifier: Natural Language :: English
17
17
  Classifier: Programming Language :: Cython
18
- Classifier: Programming Language :: Python :: 3.8
19
18
  Classifier: Programming Language :: Python :: 3.9
20
19
  Classifier: Programming Language :: Python :: 3.10
21
20
  Classifier: Programming Language :: Python :: 3.11
22
- Requires-Python: >=3.8
21
+ Classifier: Programming Language :: Python :: 3.12
22
+ Requires-Python: >=3.9
23
23
  Description-Content-Type: text/x-rst
24
24
  License-File: LICENSE
25
25
  License-File: AUTHORS.rst
@@ -116,7 +116,19 @@ the `Journal of Machine Learning Research <https://jmlr.org>`_:
116
116
  History
117
117
  =======
118
118
 
119
- 0.32.0 (2024-03-28)
119
+ 0.33.0 (2024-07-16)
120
+ -------------------
121
+
122
+ * Add Python 3.12
123
+ * Drop Python 3.8
124
+
125
+ 0.32.1 (2024-04-02)
126
+ -------------------
127
+
128
+ * Fix documentation
129
+ * Fix wheel upload
130
+
131
+ 0.32.0 (2024-03-29)
120
132
  -------------------
121
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122
134
  * Add Leiden clustering algorithm
{scikit-network-0.32.0 → scikit-network-0.33.0}/setup.cfg RENAMED
@@ -1,5 +1,5 @@
1
1
  [bumpversion]
2
- current_version = 0.32.0
2
+ current_version = 0.33.0
3
3
  commit = True
4
4
  tag = True
5
5
 
@@ -21,7 +21,7 @@ test = pytest
21
21
  collect_ignore = ['setup.py']
22
22
 
23
23
  [options]
24
- python_requires = >=3.8
24
+ python_requires = >=3.9
25
25
 
26
26
  [egg_info]
27
27
  tag_build =
{scikit-network-0.32.0 → scikit-network-0.33.0}/setup.py RENAMED
@@ -135,10 +135,10 @@ setup(
135
135
  'License :: OSI Approved :: BSD License',
136
136
  'Natural Language :: English',
137
137
  'Programming Language :: Cython',
138
- 'Programming Language :: Python :: 3.8',
139
138
  'Programming Language :: Python :: 3.9',
140
139
  'Programming Language :: Python :: 3.10',
141
- 'Programming Language :: Python :: 3.11'
140
+ 'Programming Language :: Python :: 3.11',
141
+ 'Programming Language :: Python :: 3.12'
142
142
  ],
143
143
  description="Graph algorithms",
144
144
  install_requires=requirements,
@@ -153,7 +153,7 @@ setup(
153
153
  test_suite='tests',
154
154
  tests_require=test_requirements,
155
155
  url='https://github.com/sknetwork-team/scikit-network',
156
- version='0.32.0',
156
+ version='0.33.0',
157
157
  zip_safe=False,
158
158
  ext_modules=ext_modules,
159
159
  include_dirs=[numpy.get_include()],
{scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/__init__.py RENAMED
@@ -4,7 +4,7 @@
4
4
 
5
5
  __author__ = """scikit-network team"""
6
6
  __email__ = "thomas.bonald@telecom-paris.fr"
7
- __version__ = '0.32.0'
7
+ __version__ = '0.33.0'
8
8
 
9
9
  import sknetwork.topology
10
10
  import sknetwork.path
{scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/diffusion.py RENAMED
@@ -55,7 +55,7 @@ class DiffusionClassifier(BaseClassifier):
55
55
  >>> labels_true = graph.labels
56
56
  >>> labels = {0: labels_true[0], 33: labels_true[33]}
57
57
  >>> labels_pred = diffusion.fit_predict(adjacency, labels)
58
- >>> np.round(np.mean(labels_pred == labels_true), 2)
58
+ >>> round(np.mean(labels_pred == labels_true), 2)
59
59
  0.97
60
60
 
61
61
  References
@@ -74,8 +74,9 @@ class DiffusionClassifier(BaseClassifier):
74
74
  self.scale = scale
75
75
 
76
76
  def fit(self, input_matrix: Union[sparse.csr_matrix, np.ndarray],
77
- labels: Optional[Union[dict, np.ndarray]] = None, labels_row: Optional[Union[dict, np.ndarray]] = None,
78
- labels_col: Optional[Union[dict, np.ndarray]] = None, force_bipartite: bool = False) \
77
+ labels: Optional[Union[dict, list, np.ndarray]] = None,
78
+ labels_row: Optional[Union[dict, list, np.ndarray]] = None,
79
+ labels_col: Optional[Union[dict, list, np.ndarray]] = None, force_bipartite: bool = False) \
79
80
  -> 'DiffusionClassifier':
80
81
  """Compute the solution to the Dirichlet problem (temperatures at equilibrium).
81
82
 
{scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/knn.py RENAMED
@@ -55,7 +55,7 @@ class NNClassifier(BaseClassifier):
55
55
  >>> labels_true = graph.labels
56
56
  >>> labels = {0: labels_true[0], 33: labels_true[33]}
57
57
  >>> labels_pred = classifier.fit_predict(adjacency, labels)
58
- >>> np.round(np.mean(labels_pred == labels_true), 2)
58
+ >>> round(np.mean(labels_pred == labels_true), 2)
59
59
  0.82
60
60
  """
61
61
  def __init__(self, n_neighbors: int = 3, embedding_method: Optional[BaseEmbedding] = None, normalize: bool = True):
@@ -97,8 +97,9 @@ class NNClassifier(BaseClassifier):
97
97
 
98
98
  return probs, labels
99
99
 
100
- def fit(self, input_matrix: Union[sparse.csr_matrix, np.ndarray], labels: Union[np.ndarray, dict] = None,
101
- labels_row: Union[np.ndarray, dict] = None, labels_col: Union[np.ndarray, dict] = None) -> 'NNClassifier':
100
+ def fit(self, input_matrix: Union[sparse.csr_matrix, np.ndarray], labels: Union[np.ndarray, list, dict] = None,
101
+ labels_row: Union[np.ndarray, list, dict] = None,
102
+ labels_col: Union[np.ndarray, list, dict] = None) -> 'NNClassifier':
102
103
  """Node classification by k-nearest neighbors in the embedding space.
103
104
 
104
105
  Parameters
{scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/metrics.py RENAMED
@@ -34,7 +34,7 @@ def get_accuracy_score(labels_true: np.ndarray, labels_pred: np.ndarray) -> floa
34
34
  >>> import numpy as np
35
35
  >>> labels_true = np.array([0, 0, 1, 1])
36
36
  >>> labels_pred = np.array([0, 0, 0, 1])
37
- >>> get_accuracy_score(labels_true, labels_pred)
37
+ >>> round(get_accuracy_score(labels_true, labels_pred), 2)
38
38
  0.75
39
39
  """
40
40
  check_vector_format(labels_true, labels_pred)
@@ -105,7 +105,7 @@ def get_f1_score(labels_true: np.ndarray, labels_pred: np.ndarray, return_precis
105
105
  >>> import numpy as np
106
106
  >>> labels_true = np.array([0, 0, 1, 1])
107
107
  >>> labels_pred = np.array([0, 0, 0, 1])
108
- >>> np.round(get_f1_score(labels_true, labels_pred), 2)
108
+ >>> round(get_f1_score(labels_true, labels_pred), 2)
109
109
  0.67
110
110
  """
111
111
  values = set(labels_true[labels_true >= 0]) | set(labels_pred[labels_pred >= 0])
@@ -188,7 +188,7 @@ def get_average_f1_score(labels_true: np.ndarray, labels_pred: np.ndarray, avera
188
188
  >>> import numpy as np
189
189
  >>> labels_true = np.array([0, 0, 1, 1])
190
190
  >>> labels_pred = np.array([0, 0, 0, 1])
191
- >>> np.round(get_average_f1_score(labels_true, labels_pred), 2)
191
+ >>> round(get_average_f1_score(labels_true, labels_pred), 2)
192
192
  0.73
193
193
  """
194
194
  if average == 'micro':
{scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/classification/propagation.py RENAMED
@@ -91,19 +91,20 @@ class Propagation(BaseClassifier):
91
91
  labels = labels[index_seed]
92
92
  return index_seed.astype(np.int32), index_remain.astype(np.int32), labels.astype(np.int32)
93
93
 
94
- def fit(self, input_matrix: Union[sparse.csr_matrix, np.ndarray], labels: Union[np.ndarray, dict] = None,
95
- labels_row: Union[np.ndarray, dict] = None, labels_col: Union[np.ndarray, dict] = None) -> 'Propagation':
94
+ def fit(self, input_matrix: Union[sparse.csr_matrix, np.ndarray], labels: Union[np.ndarray, list, dict] = None,
95
+ labels_row: Union[np.ndarray, list, dict] = None,
96
+ labels_col: Union[np.ndarray, list, dict] = None) -> 'Propagation':
96
97
  """Node classification by label propagation.
97
98
 
98
99
  Parameters
99
100
  ----------
100
101
  input_matrix : sparse.csr_matrix, np.ndarray
101
102
  Adjacency matrix or biadjacency matrix of the graph.
102
- labels : np.ndarray, dict
103
+ labels : array, list or dict
103
104
  Known labels. Negative values ignored.
104
- labels_row : np.ndarray, dict
105
+ labels_row : array, list or dict
105
106
  Known labels of rows, for bipartite graphs.
106
- labels_col : np.ndarray, dict
107
+ labels_col : array, list or dict
107
108
  Known labels of columns, for bipartite graphs.
108
109
 
109
110
  Returns
{scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/leiden.py RENAMED
@@ -76,7 +76,8 @@ class Leiden(Louvain):
76
76
  References
77
77
  ----------
78
78
  * Traag, V. A., Waltman, L., & Van Eck, N. J. (2019).
79
- `From Louvain to Leiden: guaranteeing well-connected communities`, Scientific reports.
79
+ `From Louvain to Leiden: guaranteeing well-connected communities`, Scientific reports.
80
+
80
81
  """
81
82
 
82
83
  def __init__(self, resolution: float = 1, modularity: str = 'dugue', tol_optimization: float = 1e-3,
{scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/louvain.py RENAMED
@@ -131,9 +131,9 @@ class Louvain(BaseClustering, Log):
131
131
  increase :
132
132
  Gain in modularity after optimization.
133
133
  """
134
- labels = labels.astype(np.int32)
135
- indices = adjacency.indices
136
- indptr = adjacency.indptr
134
+ labels = labels.astype(np.int64)
135
+ indices = adjacency.indices.astype(np.int64)
136
+ indptr = adjacency.indptr.astype(np.int64)
137
137
  data = adjacency.data.astype(np.float32)
138
138
  out_weights = out_weights.astype(np.float32)
139
139
  in_weights = in_weights.astype(np.float32)
{scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/clustering/tests/test_kcenters.py RENAMED
@@ -4,7 +4,6 @@
4
4
  import unittest
5
5
 
6
6
  from sknetwork.clustering import KCenters
7
- from sknetwork.data import karate_club, painters, star_wars
8
7
  from sknetwork.data.test_graphs import *
9
8
 
10
9
 
@@ -13,7 +12,7 @@ class TestKCentersClustering(unittest.TestCase):
13
12
  def test_kcenters(self):
14
13
  # Test undirected graph
15
14
  n_clusters = 2
16
- adjacency = karate_club()
15
+ adjacency = test_graph()
17
16
  n_row = adjacency.shape[0]
18
17
  kcenters = KCenters(n_clusters=n_clusters)
19
18
  labels = kcenters.fit_predict(adjacency)
@@ -22,7 +21,7 @@ class TestKCentersClustering(unittest.TestCase):
22
21
 
23
22
  # Test directed graph
24
23
  n_clusters = 3
25
- adjacency = painters()
24
+ adjacency = test_digraph()
26
25
  n_row = adjacency.shape[0]
27
26
  kcenters = KCenters(n_clusters=n_clusters, directed=True)
28
27
  labels = kcenters.fit_predict(adjacency)
@@ -31,7 +30,7 @@ class TestKCentersClustering(unittest.TestCase):
31
30
 
32
31
  # Test bipartite graph
33
32
  n_clusters = 2
34
- biadjacency = star_wars()
33
+ biadjacency = test_bigraph()
35
34
  n_row, n_col = biadjacency.shape
36
35
  kcenters = KCenters(n_clusters=n_clusters)
37
36
  kcenters.fit(biadjacency)
@@ -40,41 +39,10 @@ class TestKCentersClustering(unittest.TestCase):
40
39
  self.assertEqual(len(kcenters.labels_col_), n_col)
41
40
  self.assertEqual(len(set(labels)), n_clusters)
42
41
 
43
- def test_kcenters_centers(self):
44
- # Test centers for undirected graphs
45
- n_clusters = 2
46
- adjacency = karate_club()
47
- kcenters = KCenters(n_clusters=n_clusters)
48
- kcenters.fit(adjacency)
49
- centers = kcenters.centers_
50
- self.assertEqual(n_clusters, len(set(centers)))
51
-
52
- # Test centers for bipartite graphs
53
- n_clusters = 2
54
- biadjacency = star_wars()
55
- n_row, n_col = biadjacency.shape
56
- for position in ["row", "col", "both"]:
57
- kcenters = KCenters(n_clusters=n_clusters, center_position=position)
58
- kcenters.fit(biadjacency)
59
- centers_row = kcenters.centers_row_
60
- centers_col = kcenters.centers_col_
61
- if position == "row":
62
- self.assertEqual(n_clusters, len(set(centers_row)))
63
- self.assertTrue(np.all(centers_row < n_row))
64
- self.assertTrue(centers_col is None)
65
- if position == "col":
66
- self.assertEqual(n_clusters, len(set(centers_col)))
67
- self.assertTrue(np.all((centers_col < n_col) & (0 <= centers_col)))
68
- self.assertTrue(centers_row is None)
69
- if position == "both":
70
- self.assertEqual(n_clusters, len(set(centers_row)) + len(set(centers_col)))
71
- self.assertTrue(np.all(centers_row < n_row))
72
- self.assertTrue(np.all((centers_col < n_col) & (0 <= centers_col)))
73
-
74
42
  def test_kcenters_error(self):
75
43
  # Test value errors
76
- adjacency = karate_club()
77
- biadjacency = star_wars()
44
+ adjacency = test_graph()
45
+ biadjacency = test_bigraph()
78
46
 
79
47
  # test n_clusters error
80
48
  kcenters = KCenters(n_clusters=1)
{scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/__init__.py RENAMED
@@ -1,5 +1,5 @@
1
1
  """data module"""
2
- from sknetwork.data.base import Bunch
2
+ from sknetwork.data.base import *
3
3
  from sknetwork.data.load import *
4
4
  from sknetwork.data.models import *
5
5
  from sknetwork.data.parse import from_edge_list, from_adjacency_list, from_csv, from_graphml
{scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/base.py RENAMED
@@ -6,10 +6,10 @@ Created in May 2023
6
6
  """
7
7
 
8
8
 
9
- class Bunch(dict):
9
+ class Dataset(dict):
10
10
  """Container object for datasets.
11
11
  Dictionary-like object that exposes its keys as attributes.
12
- >>> dataset = Bunch(name='dataset')
12
+ >>> dataset = Dataset(name='dataset')
13
13
  >>> dataset['name']
14
14
  'dataset'
15
15
  >>> dataset.name
@@ -26,3 +26,8 @@ class Bunch(dict):
26
26
  return self[key]
27
27
  except KeyError:
28
28
  raise AttributeError(key)
29
+
30
+
31
+ # alias for Dataset
32
+ Bunch = Dataset
33
+
{scikit-network-0.32.0 → scikit-network-0.33.0}/sknetwork/data/load.py RENAMED
@@ -19,15 +19,12 @@ import numpy as np
19
19
  from scipy import sparse
20
20
 
21
21
  from sknetwork.data.parse import from_csv, load_labels, load_header, load_metadata
22
- from sknetwork.data.base import Bunch
22
+ from sknetwork.data.base import Dataset
23
23
  from sknetwork.utils.check import is_square
24
24
  from sknetwork.log import Log
25
25
 
26
26
  NETSET_URL = 'https://netset.telecom-paris.fr'
27
27
 
28
- # former name of Dataset
29
- Bunch = Bunch
30
-
31
28
 
32
29
  def is_within_directory(directory, target):
33
30
  """Utility function."""
@@ -89,7 +86,7 @@ def clean_data_home(data_home: Optional[Union[str, Path]] = None):
89
86
 
90
87
 
91
88
  def load_netset(name: Optional[str] = None, data_home: Optional[Union[str, Path]] = None,
92
- verbose: bool = True) -> Optional[Bunch]:
89
+ verbose: bool = True) -> Optional[Dataset]:
93
90
  """Load a dataset from the `NetSet collection
94
91
  <https://netset.telecom-paris.fr/>`_.
95
92
 
@@ -105,10 +102,10 @@ def load_netset(name: Optional[str] = None, data_home: Optional[Union[str, Path]
105
102
 
106
103
  Returns
107
104
  -------
108
- dataset : :class:`Bunch`
105
+ dataset : :class:`Dataset`
109
106
  Returned dataset.
110
107
  """
111
- dataset = Bunch()
108
+ dataset = Dataset()
112
109
  dataset_folder = NETSET_URL + '/datasets/'
113
110
  folder_npz = NETSET_URL + '/datasets_npz/'
114
111
 
@@ -167,7 +164,7 @@ def load_netset(name: Optional[str] = None, data_home: Optional[Union[str, Path]
167
164
 
168
165
 
169
166
  def load_konect(name: str, data_home: Optional[Union[str, Path]] = None, auto_numpy_bundle: bool = True,
170
- verbose: bool = True) -> Bunch:
167
+ verbose: bool = True) -> Dataset:
171
168
  """Load a dataset from the `Konect database
172
169
  <http://konect.cc/networks/>`_.
173
170
 
@@ -186,7 +183,7 @@ def load_konect(name: str, data_home: Optional[Union[str, Path]] = None, auto_nu
186
183
 
187
184
  Returns
188
185
  -------
189
- dataset : :class:`Bunch`
186
+ dataset : :class:`Dataset`
190
187
  Object with the following attributes:
191
188
 
192
189
  * `adjacency` or `biadjacency`: the adjacency/biadjacency matrix for the dataset
@@ -240,7 +237,7 @@ def load_konect(name: str, data_home: Optional[Union[str, Path]] = None, auto_nu
240
237
  logger.print_log('Loading from local bundle...')
241
238
  return load_from_numpy_bundle(name + '_bundle', data_path)
242
239
 
243
- dataset = Bunch()
240
+ dataset = Dataset()
244
241
  path = data_konect / name / name
245
242
  if not path.exists() or len(listdir(path)) == 0:
246
243
  raise Exception("No data downloaded.")
@@ -269,7 +266,7 @@ def load_konect(name: str, data_home: Optional[Union[str, Path]] = None, auto_nu
269
266
  else:
270
267
  dataset.meta.name = name
271
268
  else:
272
- dataset.meta = Bunch()
269
+ dataset.meta = Dataset()
273
270
  dataset.meta.name = name
274
271
 
275
272
  if auto_numpy_bundle:
@@ -280,12 +277,12 @@ def load_konect(name: str, data_home: Optional[Union[str, Path]] = None, auto_nu
280
277
  return dataset
281
278
 
282
279
 
283
- def save_to_numpy_bundle(data: Bunch, bundle_name: str, data_home: Optional[Union[str, Path]] = None):
280
+ def save_to_numpy_bundle(data: Dataset, bundle_name: str, data_home: Optional[Union[str, Path]] = None):
284
281
  """Save a dataset in the specified data home to a collection of Numpy and Pickle files for faster subsequent loads.
285
282
 
286
283
  Parameters
287
284
  ----------
288
- data: Bunch
285
+ data: Dataset
289
286
  Data to save.
290
287
  bundle_name: str
291
288
  Name to be used for the bundle folder.
@@ -317,7 +314,7 @@ def load_from_numpy_bundle(bundle_name: str, data_home: Optional[Union[str, Path
317
314
 
318
315
  Returns
319
316
  -------
320
- data: Bunch
317
+ data: Dataset
321
318
  Data.
322
319
  """
323
320
  data_home = get_data_home(data_home)
@@ -326,7 +323,7 @@ def load_from_numpy_bundle(bundle_name: str, data_home: Optional[Union[str, Path
326
323
  raise FileNotFoundError('No bundle at ' + str(data_path))
327
324
  else:
328
325
  files = listdir(data_path)
329
- data = Bunch()
326
+ data = Dataset()
330
327
  for file in files:
331
328
  if len(file.split('.')) == 2:
332
329
  file_name, file_extension = file.split('.')
@@ -340,7 +337,7 @@ def load_from_numpy_bundle(bundle_name: str, data_home: Optional[Union[str, Path
340
337
  return data
341
338
 
342
339
 
343
- def save(folder: Union[str, Path], data: Union[sparse.csr_matrix, Bunch]):
340
+ def save(folder: Union[str, Path], data: Union[sparse.csr_matrix, Dataset]):
344
341
  """Save a dataset or a CSR matrix in the current directory to a collection of Numpy and Pickle files for faster
345
342
  subsequent loads. Supported attribute types include sparse matrices, NumPy arrays, strings and objects Dataset.
346
343
 
@@ -348,13 +345,13 @@ def save(folder: Union[str, Path], data: Union[sparse.csr_matrix, Bunch]):
348
345
  ----------
349
346
  folder : str or :class:`pathlib.Path`
350
347
  Name of the bundle folder.
351
- data : Union[sparse.csr_matrix, Bunch]
348
+ data : Union[sparse.csr_matrix, Dataset]
352
349
  Data to save.
353
350
 
354
351
  Example
355
352
  -------
356
353
  >>> from sknetwork.data import save
357
- >>> dataset = Bunch()
354
+ >>> dataset = Dataset()
358
355
  >>> dataset.adjacency = sparse.csr_matrix(np.random.random((3, 3)) < 0.5)
359
356
  >>> dataset.names = np.array(['a', 'b', 'c'])
360
357
  >>> save('dataset', dataset)
@@ -366,7 +363,7 @@ def save(folder: Union[str, Path], data: Union[sparse.csr_matrix, Bunch]):
366
363
  if folder.exists():
367
364
  shutil.rmtree(folder)
368
365
  if isinstance(data, sparse.csr_matrix):
369
- dataset = Bunch()
366
+ dataset = Dataset()
370
367
  if is_square(data):
371
368
  dataset.adjacency = data
372
369
  else:
@@ -388,13 +385,13 @@ def load(folder: Union[str, Path]):
388
385
 
389
386
  Returns
390
387
  -------
391
- data: Bunch
388
+ data: Dataset
392
389
  Data.
393
390
 
394
391
  Example
395
392
  -------
396
393
  >>> from sknetwork.data import save
397
- >>> dataset = Bunch()
394
+ >>> dataset = Dataset()
398
395
  >>> dataset.adjacency = sparse.csr_matrix(np.random.random((3, 3)) < 0.5)
399
396
  >>> dataset.names = np.array(['a', 'b', 'c'])
400
397
  >>> save('dataset', dataset)