snappy 3.1.1__cp312-cp312-macosx_11_0_arm64.whl → 3.2__cp312-cp312-macosx_11_0_arm64.whl

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Files changed (461) hide show
  1. snappy/CyOpenGL.cpython-312-darwin.so +0 -0
  2. snappy/SnapPy.cpython-312-darwin.so +0 -0
  3. snappy/SnapPyHP.cpython-312-darwin.so +0 -0
  4. snappy/__init__.py +271 -401
  5. snappy/app.py +70 -20
  6. snappy/browser.py +18 -17
  7. snappy/canonical.py +249 -0
  8. snappy/{verify/cusp_shapes.py → cusps/__init__.py} +8 -18
  9. snappy/cusps/cusp_area_matrix.py +101 -0
  10. snappy/{verify/cusp_areas.py → cusps/cusp_areas_from_matrix.py} +23 -39
  11. snappy/cusps/maximal_cusp_area_matrix.py +136 -0
  12. snappy/cusps/test.py +21 -0
  13. snappy/cusps/trig_cusp_area_matrix.py +63 -0
  14. snappy/database.py +10 -9
  15. snappy/decorated_isosig.py +337 -114
  16. snappy/dev/extended_ptolemy/complexVolumesClosed.py +40 -7
  17. snappy/dev/extended_ptolemy/extended.py +3 -3
  18. snappy/dev/extended_ptolemy/phc_wrapper.py +10 -10
  19. snappy/dev/vericlosed/oneVertexTruncatedComplex.py +1 -1
  20. snappy/doc/_images/m004_paper_plane_on_systole.jpg +0 -0
  21. snappy/doc/_images/m125_paper_plane.jpg +0 -0
  22. snappy/doc/_images/o9_00000_systole_paper_plane.jpg +0 -0
  23. snappy/doc/_images/o9_00000_systole_paper_plane_closer.jpg +0 -0
  24. snappy/doc/_sources/development.rst.txt +66 -46
  25. snappy/doc/_sources/index.rst.txt +72 -5
  26. snappy/doc/_sources/installing.rst.txt +145 -162
  27. snappy/doc/_sources/news.rst.txt +73 -1
  28. snappy/doc/_sources/ptolemy_examples1.rst.txt +8 -7
  29. snappy/doc/_sources/ptolemy_examples3.rst.txt +2 -2
  30. snappy/doc/_sources/triangulation.rst.txt +2 -2
  31. snappy/doc/_sources/verify.rst.txt +89 -29
  32. snappy/doc/_sources/verify_internals.rst.txt +5 -16
  33. snappy/doc/_static/basic.css +1 -1
  34. snappy/doc/_static/css/badge_only.css +1 -1
  35. snappy/doc/_static/css/theme.css +1 -1
  36. snappy/doc/_static/doctools.js +1 -1
  37. snappy/doc/_static/documentation_options.js +1 -1
  38. snappy/doc/_static/fonts/Lato/lato-bold.eot +0 -0
  39. snappy/doc/_static/fonts/Lato/lato-bold.ttf +0 -0
  40. snappy/doc/_static/fonts/Lato/lato-bold.woff +0 -0
  41. snappy/doc/_static/fonts/Lato/lato-bold.woff2 +0 -0
  42. snappy/doc/_static/fonts/Lato/lato-bolditalic.eot +0 -0
  43. snappy/doc/_static/fonts/Lato/lato-bolditalic.ttf +0 -0
  44. snappy/doc/_static/fonts/Lato/lato-bolditalic.woff +0 -0
  45. snappy/doc/_static/fonts/Lato/lato-bolditalic.woff2 +0 -0
  46. snappy/doc/_static/fonts/Lato/lato-italic.eot +0 -0
  47. snappy/doc/_static/fonts/Lato/lato-italic.ttf +0 -0
  48. snappy/doc/_static/fonts/Lato/lato-italic.woff +0 -0
  49. snappy/doc/_static/fonts/Lato/lato-italic.woff2 +0 -0
  50. snappy/doc/_static/fonts/Lato/lato-regular.eot +0 -0
  51. snappy/doc/_static/fonts/Lato/lato-regular.ttf +0 -0
  52. snappy/doc/_static/fonts/Lato/lato-regular.woff +0 -0
  53. snappy/doc/_static/fonts/Lato/lato-regular.woff2 +0 -0
  54. snappy/doc/_static/fonts/RobotoSlab/roboto-slab-v7-bold.eot +0 -0
  55. snappy/doc/_static/fonts/RobotoSlab/roboto-slab-v7-bold.ttf +0 -0
  56. snappy/doc/_static/fonts/RobotoSlab/roboto-slab-v7-bold.woff +0 -0
  57. snappy/doc/_static/fonts/RobotoSlab/roboto-slab-v7-bold.woff2 +0 -0
  58. snappy/doc/_static/fonts/RobotoSlab/roboto-slab-v7-regular.eot +0 -0
  59. snappy/doc/_static/fonts/RobotoSlab/roboto-slab-v7-regular.ttf +0 -0
  60. snappy/doc/_static/fonts/RobotoSlab/roboto-slab-v7-regular.woff +0 -0
  61. snappy/doc/_static/fonts/RobotoSlab/roboto-slab-v7-regular.woff2 +0 -0
  62. snappy/doc/_static/js/versions.js +228 -0
  63. snappy/doc/_static/language_data.js +2 -2
  64. snappy/doc/_static/searchtools.js +108 -62
  65. snappy/doc/additional_classes.html +209 -40
  66. snappy/doc/bugs.html +16 -19
  67. snappy/doc/censuses.html +19 -38
  68. snappy/doc/credits.html +16 -19
  69. snappy/doc/development.html +84 -64
  70. snappy/doc/genindex.html +65 -144
  71. snappy/doc/index.html +81 -26
  72. snappy/doc/installing.html +158 -176
  73. snappy/doc/manifold.html +1119 -507
  74. snappy/doc/manifoldhp.html +16 -19
  75. snappy/doc/news.html +90 -32
  76. snappy/doc/objects.inv +0 -0
  77. snappy/doc/other.html +17 -19
  78. snappy/doc/platonic_census.html +16 -19
  79. snappy/doc/plink.html +16 -19
  80. snappy/doc/ptolemy.html +17 -19
  81. snappy/doc/ptolemy_classes.html +31 -34
  82. snappy/doc/ptolemy_examples1.html +23 -25
  83. snappy/doc/ptolemy_examples2.html +16 -19
  84. snappy/doc/ptolemy_examples3.html +18 -21
  85. snappy/doc/ptolemy_examples4.html +16 -19
  86. snappy/doc/ptolemy_prelim.html +17 -20
  87. snappy/doc/py-modindex.html +16 -19
  88. snappy/doc/screenshots.html +18 -20
  89. snappy/doc/search.html +15 -18
  90. snappy/doc/searchindex.js +1 -1
  91. snappy/doc/snap.html +16 -19
  92. snappy/doc/snappy.html +17 -19
  93. snappy/doc/spherogram.html +29 -32
  94. snappy/doc/todo.html +16 -19
  95. snappy/doc/triangulation.html +299 -190
  96. snappy/doc/tutorial.html +16 -19
  97. snappy/doc/verify.html +97 -43
  98. snappy/doc/verify_internals.html +59 -516
  99. snappy/drilling/__init__.py +153 -235
  100. snappy/drilling/barycentric.py +103 -0
  101. snappy/drilling/constants.py +0 -2
  102. snappy/drilling/crush.py +56 -130
  103. snappy/drilling/cusps.py +12 -6
  104. snappy/drilling/debug.py +2 -1
  105. snappy/drilling/exceptions.py +7 -40
  106. snappy/drilling/moves.py +302 -243
  107. snappy/drilling/perturb.py +63 -37
  108. snappy/drilling/shorten.py +36 -0
  109. snappy/drilling/subdivide.py +0 -5
  110. snappy/drilling/test.py +23 -0
  111. snappy/drilling/test_cases.py +126 -0
  112. snappy/drilling/tracing.py +9 -37
  113. snappy/exceptions.py +18 -5
  114. snappy/exterior_to_link/barycentric_geometry.py +2 -4
  115. snappy/exterior_to_link/main.py +8 -7
  116. snappy/exterior_to_link/mcomplex_with_link.py +2 -2
  117. snappy/exterior_to_link/rational_linear_algebra.py +1 -1
  118. snappy/exterior_to_link/rational_linear_algebra_wrapped.py +1 -1
  119. snappy/exterior_to_link/test.py +21 -33
  120. snappy/geometric_structure/__init__.py +212 -0
  121. snappy/geometric_structure/cusp_neighborhood/__init__.py +3 -0
  122. snappy/geometric_structure/cusp_neighborhood/complex_cusp_cross_section.py +697 -0
  123. snappy/geometric_structure/cusp_neighborhood/cusp_cross_section_base.py +484 -0
  124. snappy/geometric_structure/cusp_neighborhood/exceptions.py +42 -0
  125. snappy/geometric_structure/cusp_neighborhood/real_cusp_cross_section.py +298 -0
  126. snappy/geometric_structure/cusp_neighborhood/tiles_for_cusp_neighborhood.py +159 -0
  127. snappy/geometric_structure/cusp_neighborhood/vertices.py +32 -0
  128. snappy/geometric_structure/geodesic/__init__.py +0 -0
  129. snappy/geometric_structure/geodesic/add_core_curves.py +152 -0
  130. snappy/geometric_structure/geodesic/avoid_core_curves.py +369 -0
  131. snappy/geometric_structure/geodesic/canonical_keys.py +52 -0
  132. snappy/geometric_structure/geodesic/check_away_from_core_curve.py +60 -0
  133. snappy/geometric_structure/geodesic/constants.py +6 -0
  134. snappy/geometric_structure/geodesic/exceptions.py +22 -0
  135. snappy/{drilling → geometric_structure/geodesic}/fixed_points.py +34 -9
  136. snappy/{drilling/geodesic_info.py → geometric_structure/geodesic/geodesic_start_point_info.py} +139 -180
  137. snappy/geometric_structure/geodesic/graph_trace_helper.py +67 -0
  138. snappy/geometric_structure/geodesic/line.py +30 -0
  139. snappy/geometric_structure/geodesic/multiplicity.py +127 -0
  140. snappy/geometric_structure/geodesic/tiles_for_geodesic.py +101 -0
  141. snappy/geometric_structure/test.py +22 -0
  142. snappy/gui.py +23 -13
  143. snappy/horoviewer.py +7 -7
  144. snappy/hyperboloid/__init__.py +96 -31
  145. snappy/hyperboloid/distances.py +245 -0
  146. snappy/hyperboloid/horoball.py +19 -0
  147. snappy/hyperboloid/line.py +35 -0
  148. snappy/hyperboloid/point.py +9 -0
  149. snappy/hyperboloid/triangle.py +29 -0
  150. snappy/isometry_signature.py +382 -0
  151. snappy/len_spec/__init__.py +596 -0
  152. snappy/len_spec/geodesic_info.py +110 -0
  153. snappy/len_spec/geodesic_key_info_dict.py +117 -0
  154. snappy/len_spec/geodesic_piece.py +143 -0
  155. snappy/len_spec/geometric_structure.py +182 -0
  156. snappy/len_spec/geometry.py +80 -0
  157. snappy/len_spec/length_spectrum_geodesic_info.py +170 -0
  158. snappy/len_spec/spine.py +206 -0
  159. snappy/len_spec/test.py +24 -0
  160. snappy/len_spec/test_cases.py +69 -0
  161. snappy/len_spec/tile.py +275 -0
  162. snappy/len_spec/word.py +86 -0
  163. snappy/math_basics.py +39 -13
  164. snappy/matrix.py +52 -9
  165. snappy/number.py +12 -6
  166. snappy/numeric_output_checker.py +2 -3
  167. snappy/pari.py +6 -3
  168. snappy/polyviewer.py +8 -8
  169. snappy/ptolemy/__init__.py +1 -1
  170. snappy/ptolemy/component.py +2 -2
  171. snappy/ptolemy/coordinates.py +25 -25
  172. snappy/ptolemy/findLoops.py +9 -9
  173. snappy/ptolemy/manifoldMethods.py +27 -29
  174. snappy/ptolemy/polynomial.py +50 -57
  175. snappy/ptolemy/processFileBase.py +60 -0
  176. snappy/ptolemy/ptolemyVariety.py +109 -41
  177. snappy/ptolemy/reginaWrapper.py +4 -4
  178. snappy/ptolemy/rur.py +1 -1
  179. snappy/ptolemy/solutionsToPrimeIdealGroebnerBasis.py +9 -9
  180. snappy/ptolemy/test.py +99 -54
  181. snappy/ptolemy/utilities.py +1 -1
  182. snappy/raytracing/__init__.py +64 -0
  183. snappy/raytracing/additional_horospheres.py +64 -0
  184. snappy/raytracing/additional_len_spec_choices.py +63 -0
  185. snappy/raytracing/cohomology_fractal.py +0 -3
  186. snappy/raytracing/eyeball.py +123 -0
  187. snappy/raytracing/finite_raytracing_data.py +17 -17
  188. snappy/raytracing/finite_viewer.py +15 -15
  189. snappy/raytracing/geodesic_tube_info.py +93 -63
  190. snappy/raytracing/geodesics.py +94 -64
  191. snappy/raytracing/geodesics_window.py +56 -34
  192. snappy/raytracing/gui_utilities.py +21 -6
  193. snappy/raytracing/hyperboloid_navigation.py +29 -4
  194. snappy/raytracing/hyperboloid_utilities.py +73 -73
  195. snappy/raytracing/ideal_raytracing_data.py +121 -91
  196. snappy/raytracing/inside_viewer.py +199 -66
  197. snappy/raytracing/pack.py +22 -0
  198. snappy/raytracing/raytracing_data.py +37 -25
  199. snappy/raytracing/raytracing_view.py +70 -65
  200. snappy/raytracing/shaders/Eye.png +0 -0
  201. snappy/raytracing/shaders/NonGeometric.png +0 -0
  202. snappy/raytracing/shaders/__init__.py +39 -3
  203. snappy/raytracing/shaders/fragment.glsl +451 -133
  204. snappy/raytracing/test.py +29 -0
  205. snappy/raytracing/tooltip.py +146 -0
  206. snappy/raytracing/upper_halfspace_utilities.py +42 -9
  207. snappy/sage_helper.py +67 -134
  208. snappy/settings.py +90 -77
  209. snappy/shell.py +2 -0
  210. snappy/snap/character_varieties.py +2 -2
  211. snappy/snap/find_field.py +4 -3
  212. snappy/snap/fundamental_polyhedron.py +2 -2
  213. snappy/snap/kernel_structures.py +5 -1
  214. snappy/snap/nsagetools.py +9 -8
  215. snappy/snap/peripheral/dual_cellulation.py +4 -3
  216. snappy/snap/peripheral/peripheral.py +2 -2
  217. snappy/snap/peripheral/surface.py +5 -5
  218. snappy/snap/peripheral/test.py +1 -1
  219. snappy/snap/polished_reps.py +8 -8
  220. snappy/snap/slice_obs_HKL.py +16 -14
  221. snappy/snap/t3mlite/arrow.py +3 -3
  222. snappy/snap/t3mlite/edge.py +3 -3
  223. snappy/snap/t3mlite/homology.py +2 -2
  224. snappy/snap/t3mlite/mcomplex.py +3 -3
  225. snappy/snap/t3mlite/simplex.py +12 -0
  226. snappy/snap/t3mlite/spun.py +18 -17
  227. snappy/snap/t3mlite/test_vs_regina.py +4 -4
  228. snappy/snap/test.py +37 -53
  229. snappy/snap/utilities.py +4 -5
  230. snappy/test.py +121 -138
  231. snappy/test_cases.py +263 -0
  232. snappy/testing.py +131 -0
  233. snappy/tiling/__init__.py +2 -0
  234. snappy/tiling/canonical_key_dict.py +59 -0
  235. snappy/tiling/dict_based_set.py +79 -0
  236. snappy/tiling/floor.py +49 -0
  237. snappy/tiling/hyperboloid_dict.py +54 -0
  238. snappy/tiling/iter_utils.py +78 -0
  239. snappy/tiling/lifted_tetrahedron.py +22 -0
  240. snappy/tiling/lifted_tetrahedron_set.py +54 -0
  241. snappy/tiling/real_hash_dict.py +164 -0
  242. snappy/tiling/test.py +23 -0
  243. snappy/tiling/tile.py +215 -0
  244. snappy/tiling/triangle.py +33 -0
  245. snappy/tkterminal.py +113 -84
  246. snappy/twister/main.py +1 -7
  247. snappy/twister/twister_core.cpython-312-darwin.so +0 -0
  248. snappy/upper_halfspace/__init__.py +78 -17
  249. snappy/verify/__init__.py +3 -7
  250. snappy/verify/{verifyCanonical.py → canonical.py} +78 -70
  251. snappy/verify/complex_volume/adjust_torsion.py +1 -2
  252. snappy/verify/complex_volume/closed.py +13 -13
  253. snappy/verify/complex_volume/cusped.py +6 -6
  254. snappy/verify/complex_volume/extended_bloch.py +5 -8
  255. snappy/verify/{cuspTranslations.py → cusp_translations.py} +1 -1
  256. snappy/verify/edge_equations.py +80 -0
  257. snappy/verify/exceptions.py +0 -55
  258. snappy/verify/{verifyHyperbolicity.py → hyperbolicity.py} +3 -3
  259. snappy/verify/interval_newton_shapes_engine.py +7 -5
  260. snappy/verify/interval_tree.py +5 -5
  261. snappy/verify/krawczyk_shapes_engine.py +17 -18
  262. snappy/verify/maximal_cusp_area_matrix/__init__.py +7 -74
  263. snappy/verify/maximal_cusp_area_matrix/cusp_tiling_engine.py +3 -4
  264. snappy/verify/maximal_cusp_area_matrix/cusp_translate_engine.py +1 -1
  265. snappy/verify/{realAlgebra.py → real_algebra.py} +1 -1
  266. snappy/verify/shapes.py +5 -3
  267. snappy/verify/short_slopes.py +39 -41
  268. snappy/verify/{squareExtensions.py → square_extensions.py} +14 -11
  269. snappy/verify/test.py +57 -60
  270. snappy/verify/upper_halfspace/extended_matrix.py +1 -1
  271. snappy/verify/upper_halfspace/finite_point.py +3 -4
  272. snappy/verify/upper_halfspace/ideal_point.py +9 -9
  273. snappy/verify/volume.py +2 -2
  274. snappy/version.py +2 -2
  275. {snappy-3.1.1.dist-info → snappy-3.2.dist-info}/METADATA +25 -11
  276. snappy-3.2.dist-info/RECORD +503 -0
  277. {snappy-3.1.1.dist-info → snappy-3.2.dist-info}/WHEEL +1 -1
  278. {snappy-3.1.1.dist-info → snappy-3.2.dist-info}/top_level.txt +6 -1
  279. snappy/__pycache__/__init__.cpython-312.pyc +0 -0
  280. snappy/__pycache__/browser.cpython-312.pyc +0 -0
  281. snappy/__pycache__/cache.cpython-312.pyc +0 -0
  282. snappy/__pycache__/database.cpython-312.pyc +0 -0
  283. snappy/__pycache__/db_utilities.cpython-312.pyc +0 -0
  284. snappy/__pycache__/decorated_isosig.cpython-312.pyc +0 -0
  285. snappy/__pycache__/exceptions.cpython-312.pyc +0 -0
  286. snappy/__pycache__/export_stl.cpython-312.pyc +0 -0
  287. snappy/__pycache__/filedialog.cpython-312.pyc +0 -0
  288. snappy/__pycache__/gui.cpython-312.pyc +0 -0
  289. snappy/__pycache__/horoviewer.cpython-312.pyc +0 -0
  290. snappy/__pycache__/infowindow.cpython-312.pyc +0 -0
  291. snappy/__pycache__/math_basics.cpython-312.pyc +0 -0
  292. snappy/__pycache__/matrix.cpython-312.pyc +0 -0
  293. snappy/__pycache__/number.cpython-312.pyc +0 -0
  294. snappy/__pycache__/numeric_output_checker.cpython-312.pyc +0 -0
  295. snappy/__pycache__/pari.cpython-312.pyc +0 -0
  296. snappy/__pycache__/polyviewer.cpython-312.pyc +0 -0
  297. snappy/__pycache__/sage_helper.cpython-312.pyc +0 -0
  298. snappy/__pycache__/version.cpython-312.pyc +0 -0
  299. snappy/doc/_sources/verify_canon.rst.txt +0 -90
  300. snappy/doc/_static/js/html5shiv-printshiv.min.js +0 -4
  301. snappy/doc/_static/js/html5shiv.min.js +0 -4
  302. snappy/doc/verify_canon.html +0 -304
  303. snappy/drilling/__pycache__/__init__.cpython-312.pyc +0 -0
  304. snappy/drilling/__pycache__/constants.cpython-312.pyc +0 -0
  305. snappy/drilling/__pycache__/crush.cpython-312.pyc +0 -0
  306. snappy/drilling/__pycache__/cusps.cpython-312.pyc +0 -0
  307. snappy/drilling/__pycache__/debug.cpython-312.pyc +0 -0
  308. snappy/drilling/__pycache__/epsilons.cpython-312.pyc +0 -0
  309. snappy/drilling/__pycache__/exceptions.cpython-312.pyc +0 -0
  310. snappy/drilling/__pycache__/fixed_points.cpython-312.pyc +0 -0
  311. snappy/drilling/__pycache__/geodesic_info.cpython-312.pyc +0 -0
  312. snappy/drilling/__pycache__/geodesic_tube.cpython-312.pyc +0 -0
  313. snappy/drilling/__pycache__/geometric_structure.cpython-312.pyc +0 -0
  314. snappy/drilling/__pycache__/line.cpython-312.pyc +0 -0
  315. snappy/drilling/__pycache__/moves.cpython-312.pyc +0 -0
  316. snappy/drilling/__pycache__/peripheral_curves.cpython-312.pyc +0 -0
  317. snappy/drilling/__pycache__/perturb.cpython-312.pyc +0 -0
  318. snappy/drilling/__pycache__/quotient_space.cpython-312.pyc +0 -0
  319. snappy/drilling/__pycache__/spatial_dict.cpython-312.pyc +0 -0
  320. snappy/drilling/__pycache__/subdivide.cpython-312.pyc +0 -0
  321. snappy/drilling/__pycache__/tracing.cpython-312.pyc +0 -0
  322. snappy/drilling/geodesic_tube.py +0 -441
  323. snappy/drilling/geometric_structure.py +0 -366
  324. snappy/drilling/line.py +0 -122
  325. snappy/drilling/quotient_space.py +0 -94
  326. snappy/drilling/spatial_dict.py +0 -128
  327. snappy/exterior_to_link/__pycache__/__init__.cpython-312.pyc +0 -0
  328. snappy/exterior_to_link/__pycache__/barycentric_geometry.cpython-312.pyc +0 -0
  329. snappy/exterior_to_link/__pycache__/exceptions.cpython-312.pyc +0 -0
  330. snappy/exterior_to_link/__pycache__/hyp_utils.cpython-312.pyc +0 -0
  331. snappy/exterior_to_link/__pycache__/link_projection.cpython-312.pyc +0 -0
  332. snappy/exterior_to_link/__pycache__/main.cpython-312.pyc +0 -0
  333. snappy/exterior_to_link/__pycache__/mcomplex_with_expansion.cpython-312.pyc +0 -0
  334. snappy/exterior_to_link/__pycache__/mcomplex_with_link.cpython-312.pyc +0 -0
  335. snappy/exterior_to_link/__pycache__/mcomplex_with_memory.cpython-312.pyc +0 -0
  336. snappy/exterior_to_link/__pycache__/pl_utils.cpython-312.pyc +0 -0
  337. snappy/exterior_to_link/__pycache__/put_in_S3.cpython-312.pyc +0 -0
  338. snappy/exterior_to_link/__pycache__/rational_linear_algebra.cpython-312.pyc +0 -0
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  <li><p>The 4-valent vertices of G are turned into crossings by flipping a
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248
  fair coin. If you want the unique alternating diagram associated to
252
- G, pass <code class="docutils literal notranslate"><span class="pre">alternating</span> <span class="pre">=</span> <span class="pre">True</span></code>. If you want there to be no
249
+ G, pass <code class="docutils literal notranslate"><span class="pre">alternating=True</span></code>. If you want there to be no
253
250
  obvious Type II Reidemeister moves, pass
254
- <code class="docutils literal notranslate"><span class="pre">consistent_twist_regions</span> <span class="pre">=</span> <span class="pre">False</span></code>.</p></li>
251
+ <code class="docutils literal notranslate"><span class="pre">consistent_twist_regions=True</span></code>.</p></li>
255
252
  <li><p><code class="docutils literal notranslate"><span class="pre">simplify</span></code>: Whether and how to try to reduce the number of
256
253
  crossings of the link via Reidemeister moves using the method
257
- <code class="docutils literal notranslate"><span class="pre">Link.simplify</span></code>. For no simplification, set <code class="docutils literal notranslate"><span class="pre">simplify</span> <span class="pre">=</span> <span class="pre">None</span></code>;
254
+ <code class="docutils literal notranslate"><span class="pre">Link.simplify</span></code>. For no simplification, set <code class="docutils literal notranslate"><span class="pre">simplify=None</span></code>;
258
255
  otherwise set <code class="docutils literal notranslate"><span class="pre">simplify</span></code> to be the appropriate mode for
259
256
  <code class="docutils literal notranslate"><span class="pre">Link.simplify</span></code>, for example <code class="docutils literal notranslate"><span class="pre">basic</span></code> (the default), <code class="docutils literal notranslate"><span class="pre">level</span></code>,
260
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  or <code class="docutils literal notranslate"><span class="pre">global</span></code>.</p></li>
@@ -783,18 +780,18 @@ is recorded.)</p></li>
783
780
  </ul>
784
781
  <p>For example, to compute the vertical differential, whose homology
785
782
  is HFhat(S^3), you can do:</p>
786
- <div class="doctest highlight-default notranslate"><div class="highlight"><pre><span></span><span class="gp">&gt;&gt;&gt; </span><span class="n">data</span> <span class="o">=</span> <span class="n">L</span><span class="o">.</span><span class="n">knot_floer_homology</span><span class="p">(</span><span class="n">prime</span><span class="o">=</span><span class="mi">31991</span><span class="p">,</span> <span class="nb">complex</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
787
- <span class="gp">&gt;&gt;&gt; </span><span class="n">gens</span><span class="p">,</span> <span class="n">diff</span> <span class="o">=</span> <span class="n">data</span><span class="p">[</span><span class="s1">&#39;generators&#39;</span><span class="p">],</span> <span class="n">data</span><span class="p">[</span><span class="s1">&#39;differentials&#39;</span><span class="p">]</span>
788
- <span class="gp">&gt;&gt;&gt; </span><span class="n">vert</span> <span class="o">=</span> <span class="p">{(</span><span class="n">i</span><span class="p">,</span><span class="n">j</span><span class="p">):</span><span class="n">diff</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span> <span class="ow">in</span> <span class="n">diff</span>
789
- <span class="gp">... </span> <span class="k">if</span> <span class="n">gens</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="n">gens</span><span class="p">[</span><span class="n">j</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">}</span>
783
+ <div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">sage</span><span class="p">:</span> <span class="n">data</span> <span class="o">=</span> <span class="n">L</span><span class="o">.</span><span class="n">knot_floer_homology</span><span class="p">(</span><span class="n">prime</span><span class="o">=</span><span class="mi">31991</span><span class="p">,</span> <span class="nb">complex</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
784
+ <span class="n">sage</span><span class="p">:</span> <span class="n">gens</span><span class="p">,</span> <span class="n">diff</span> <span class="o">=</span> <span class="n">data</span><span class="p">[</span><span class="s1">&#39;generators&#39;</span><span class="p">],</span> <span class="n">data</span><span class="p">[</span><span class="s1">&#39;differentials&#39;</span><span class="p">]</span>
785
+ <span class="n">sage</span><span class="p">:</span> <span class="n">vert</span> <span class="o">=</span> <span class="p">{(</span><span class="n">i</span><span class="p">,</span><span class="n">j</span><span class="p">):</span><span class="n">diff</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span> <span class="ow">in</span> <span class="n">diff</span>
786
+ <span class="o">...</span> <span class="k">if</span> <span class="n">gens</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="n">gens</span><span class="p">[</span><span class="n">j</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">}</span>
787
+ <span class="n">sage</span><span class="p">:</span> <span class="kn">from</span> <span class="nn">sage.all</span> <span class="kn">import</span> <span class="n">matrix</span><span class="p">,</span> <span class="n">GF</span>
788
+ <span class="n">sage</span><span class="p">:</span> <span class="n">M</span> <span class="o">=</span> <span class="n">matrix</span><span class="p">(</span><span class="n">GF</span><span class="p">(</span><span class="mi">31991</span><span class="p">),</span> <span class="nb">len</span><span class="p">(</span><span class="n">gens</span><span class="p">),</span> <span class="nb">len</span><span class="p">(</span><span class="n">gens</span><span class="p">),</span> <span class="n">vert</span><span class="p">,</span> <span class="n">sparse</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
789
+ <span class="n">sage</span><span class="p">:</span> <span class="n">M</span><span class="o">*</span><span class="n">M</span> <span class="o">==</span> <span class="mi">0</span>
790
+ <span class="kc">True</span>
791
+ <span class="n">sage</span><span class="p">:</span> <span class="n">M</span><span class="o">.</span><span class="n">right_kernel</span><span class="p">()</span><span class="o">.</span><span class="n">rank</span><span class="p">()</span> <span class="o">-</span> <span class="n">M</span><span class="o">.</span><span class="n">rank</span><span class="p">()</span>
792
+ <span class="mi">1</span>
790
793
  </pre></div>
791
794
  </div>
792
- <p>sage: from sage.all import matrix, GF
793
- sage: M = matrix(GF(31991), len(gens), len(gens), vert, sparse=True)
794
- sage: M*M == 0
795
- True
796
- sage: M.right_kernel().rank() - M.rank()
797
- 1</p>
798
795
  </dd></dl>
799
796
 
800
797
  <dl class="py method">
@@ -1191,7 +1188,7 @@ and used as the braid_closure parameter.</p>
1191
1188
  <hr/>
1192
1189
 
1193
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  <div role="contentinfo">
1194
- <p>&#169; Copyright 2009-2023, by Marc Culler, Nathan Dunfield, Matthias Goerner, Jeffrey Weeks and others.</p>
1191
+ <p>&#169; Copyright 2009-2025, by Marc Culler, Nathan Dunfield, Matthias Goerner, Jeffrey Weeks and others.</p>
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- <html class="writer-html5" lang="en" >
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+ <html class="writer-html5" lang="en" data-content_root="./">
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- <meta charset="utf-8" /><meta name="generator" content="Docutils 0.18.1: http://docutils.sourceforge.net/" />
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+ <meta charset="utf-8" /><meta name="viewport" content="width=device-width, initial-scale=1" />
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  <meta name="viewport" content="width=device-width, initial-scale=1.0" />
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- <title>To Do List &mdash; SnapPy 3.1.1 documentation</title>
8
- <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
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- <link rel="stylesheet" href="_static/css/theme.css" type="text/css" />
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- <link rel="stylesheet" href="_static/snappy_sphinx_rtd_theme.css" type="text/css" />
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- <link rel="shortcut icon" href="_static/SnapPy.ico"/>
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- <!--[if lt IE 9]>
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- <script src="_static/js/html5shiv.min.js"></script>
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- <![endif]-->
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+ <title>To Do List &mdash; SnapPy 3.2 documentation</title>
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+ <link rel="stylesheet" type="text/css" href="_static/pygments.css?v=fa44fd50" />
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+ <link rel="stylesheet" type="text/css" href="_static/css/theme.css?v=e59714d7" />
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+ <link rel="stylesheet" type="text/css" href="_static/snappy_sphinx_rtd_theme.css?v=1b8ec2a8" />
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+
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- <script src="_static/jquery.js?v=5d32c60e"></script>
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- <script src="_static/_sphinx_javascript_frameworks_compat.js?v=2cd50e6c"></script>
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- <script src="_static/documentation_options.js?v=796a81b5"></script>
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- <script src="_static/doctools.js?v=888ff710"></script>
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- <script src="_static/sphinx_highlight.js?v=dc90522c"></script>
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+ <link rel="shortcut icon" href="_static/SnapPy.ico"/>
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+ <script src="_static/jquery.js?v=5d32c60e"></script>
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+ <script src="_static/_sphinx_javascript_frameworks_compat.js?v=2cd50e6c"></script>
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+ <script src="_static/documentation_options.js?v=828ea960"></script>
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+ <script src="_static/doctools.js?v=9a2dae69"></script>
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+ <script src="_static/sphinx_highlight.js?v=dc90522c"></script>
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  <script src="_static/js/theme.js"></script>
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  <link rel="index" title="Index" href="genindex.html" />
23
23
  <link rel="search" title="Search" href="search.html" />
@@ -37,9 +37,6 @@
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  SnapPy
38
38
  <img src="_static/SnapPy-horizontal-128.png" class="logo" alt="Logo"/>
39
39
  </a>
40
- <div class="version">
41
- 3.1.1
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- </div>
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  <div role="search">
44
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  <form id="rtd-search-form" class="wy-form" action="search.html" method="get">
45
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  <input type="text" name="q" placeholder="Search docs" aria-label="Search docs" />
@@ -146,7 +143,7 @@ fields.</p></li>
146
143
  <hr/>
147
144
 
148
145
  <div role="contentinfo">
149
- <p>&#169; Copyright 2009-2023, by Marc Culler, Nathan Dunfield, Matthias Goerner, Jeffrey Weeks and others.</p>
146
+ <p>&#169; Copyright 2009-2025, by Marc Culler, Nathan Dunfield, Matthias Goerner, Jeffrey Weeks and others.</p>
150
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  </div>
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152
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  Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a